-- dump date 20140620_025047 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272942000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272942000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 272942000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942000004 Walker A motif; other site 272942000005 ATP binding site [chemical binding]; other site 272942000006 Walker B motif; other site 272942000007 arginine finger; other site 272942000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 272942000009 DnaA box-binding interface [nucleotide binding]; other site 272942000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 272942000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 272942000012 putative DNA binding surface [nucleotide binding]; other site 272942000013 dimer interface [polypeptide binding]; other site 272942000014 beta-clamp/clamp loader binding surface; other site 272942000015 beta-clamp/translesion DNA polymerase binding surface; other site 272942000016 recombination protein F; Reviewed; Region: recF; PRK00064 272942000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000018 Walker A/P-loop; other site 272942000019 ATP binding site [chemical binding]; other site 272942000020 Q-loop/lid; other site 272942000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000022 ABC transporter signature motif; other site 272942000023 Walker B; other site 272942000024 D-loop; other site 272942000025 H-loop/switch region; other site 272942000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272942000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942000028 Mg2+ binding site [ion binding]; other site 272942000029 G-X-G motif; other site 272942000030 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 272942000031 anchoring element; other site 272942000032 dimer interface [polypeptide binding]; other site 272942000033 ATP binding site [chemical binding]; other site 272942000034 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 272942000035 active site 272942000036 putative metal-binding site [ion binding]; other site 272942000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272942000038 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 272942000039 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272942000040 OmpA family; Region: OmpA; pfam00691 272942000041 ligand binding site [chemical binding]; other site 272942000042 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 272942000043 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 272942000044 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272942000045 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 272942000046 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272942000047 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272942000048 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 272942000049 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272942000050 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 272942000051 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 272942000052 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 272942000053 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942000054 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272942000055 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272942000056 Walker A/P-loop; other site 272942000057 ATP binding site [chemical binding]; other site 272942000058 Q-loop/lid; other site 272942000059 ABC transporter signature motif; other site 272942000060 Walker B; other site 272942000061 D-loop; other site 272942000062 H-loop/switch region; other site 272942000063 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272942000064 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272942000065 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 272942000066 xylose isomerase; Provisional; Region: PRK05474 272942000067 xylose isomerase; Region: xylose_isom_A; TIGR02630 272942000068 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 272942000069 N- and C-terminal domain interface [polypeptide binding]; other site 272942000070 D-xylulose kinase; Region: XylB; TIGR01312 272942000071 active site 272942000072 MgATP binding site [chemical binding]; other site 272942000073 catalytic site [active] 272942000074 metal binding site [ion binding]; metal-binding site 272942000075 xylulose binding site [chemical binding]; other site 272942000076 homodimer interface [polypeptide binding]; other site 272942000077 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942000078 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942000079 Walker A/P-loop; other site 272942000080 ATP binding site [chemical binding]; other site 272942000081 Q-loop/lid; other site 272942000082 ABC transporter signature motif; other site 272942000083 Walker B; other site 272942000084 D-loop; other site 272942000085 H-loop/switch region; other site 272942000086 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942000087 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942000088 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942000089 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942000090 TM-ABC transporter signature motif; other site 272942000091 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 272942000092 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 272942000093 putative ligand binding site [chemical binding]; other site 272942000094 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942000095 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272942000096 Family description; Region: VCBS; pfam13517 272942000097 Family description; Region: VCBS; pfam13517 272942000098 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 272942000099 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 272942000100 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 272942000101 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272942000102 active site 272942000103 catalytic tetrad [active] 272942000104 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 272942000105 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 272942000106 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942000107 FAD binding site [chemical binding]; other site 272942000108 substrate binding pocket [chemical binding]; other site 272942000109 catalytic base [active] 272942000110 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942000111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942000112 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942000113 dimerization interface [polypeptide binding]; other site 272942000114 Family of unknown function (DUF490); Region: DUF490; pfam04357 272942000115 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 272942000116 Surface antigen; Region: Bac_surface_Ag; pfam01103 272942000117 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272942000118 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 272942000119 nudix motif; other site 272942000120 Preprotein translocase subunit SecB; Region: SecB; pfam02556 272942000121 SecA binding site; other site 272942000122 Preprotein binding site; other site 272942000123 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 272942000124 Tim44-like domain; Region: Tim44; pfam04280 272942000125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 272942000126 Smr domain; Region: Smr; pfam01713 272942000127 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 272942000128 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 272942000129 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942000130 Walker A motif; other site 272942000131 ATP binding site [chemical binding]; other site 272942000132 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 272942000133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 272942000134 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 272942000135 active site 272942000136 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 272942000137 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272942000138 catalytic residues [active] 272942000139 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 272942000140 Part of AAA domain; Region: AAA_19; pfam13245 272942000141 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272942000142 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 272942000143 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942000144 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 272942000145 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 272942000146 Substrate binding site; other site 272942000147 metal-binding site 272942000148 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 272942000149 Phosphotransferase enzyme family; Region: APH; pfam01636 272942000150 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 272942000151 PAS fold; Region: PAS_7; pfam12860 272942000152 PAS fold; Region: PAS_7; pfam12860 272942000153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942000154 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942000155 dimer interface [polypeptide binding]; other site 272942000156 phosphorylation site [posttranslational modification] 272942000157 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942000158 ATP binding site [chemical binding]; other site 272942000159 Mg2+ binding site [ion binding]; other site 272942000160 G-X-G motif; other site 272942000161 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 272942000162 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 272942000163 Cu(I) binding site [ion binding]; other site 272942000164 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 272942000165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942000166 active site 272942000167 phosphorylation site [posttranslational modification] 272942000168 intermolecular recognition site; other site 272942000169 dimerization interface [polypeptide binding]; other site 272942000170 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 272942000171 H-NS histone family; Region: Histone_HNS; pfam00816 272942000172 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 272942000173 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942000174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942000175 The C-terminal substrate-binding domain of LysR-type transcriptional regulator HvrB, an activator of S-adenosyl-L-homocysteine hydrolase expression, contains the type 2 periplasmic binding fold; Region: PBP2_HvrB; cd08483 272942000176 putative dimerization interface [polypeptide binding]; other site 272942000177 putative substrate binding pocket [chemical binding]; other site 272942000178 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 272942000179 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 272942000180 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 272942000181 homotetramer interface [polypeptide binding]; other site 272942000182 ligand binding site [chemical binding]; other site 272942000183 catalytic site [active] 272942000184 NAD binding site [chemical binding]; other site 272942000185 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 272942000186 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 272942000187 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942000188 substrate binding site [chemical binding]; other site 272942000189 oxyanion hole (OAH) forming residues; other site 272942000190 trimer interface [polypeptide binding]; other site 272942000191 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 272942000192 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 272942000193 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272942000194 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 272942000195 active site 272942000196 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942000197 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942000198 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 272942000199 FHIPEP family; Region: FHIPEP; pfam00771 272942000200 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 272942000201 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 272942000202 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 272942000203 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 272942000204 ParB-like nuclease domain; Region: ParB; smart00470 272942000205 KorB domain; Region: KorB; pfam08535 272942000206 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272942000207 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272942000208 P-loop; other site 272942000209 Magnesium ion binding site [ion binding]; other site 272942000210 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272942000211 Magnesium ion binding site [ion binding]; other site 272942000212 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 272942000213 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 272942000214 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272942000215 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 272942000216 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 272942000217 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272942000218 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272942000219 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272942000220 G1 box; other site 272942000221 GTP/Mg2+ binding site [chemical binding]; other site 272942000222 Switch I region; other site 272942000223 G2 box; other site 272942000224 Switch II region; other site 272942000225 G3 box; other site 272942000226 G4 box; other site 272942000227 G5 box; other site 272942000228 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272942000229 transcription termination factor Rho; Provisional; Region: rho; PRK09376 272942000230 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 272942000231 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 272942000232 RNA binding site [nucleotide binding]; other site 272942000233 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 272942000234 multimer interface [polypeptide binding]; other site 272942000235 Walker A motif; other site 272942000236 ATP binding site [chemical binding]; other site 272942000237 Walker B motif; other site 272942000238 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 272942000239 Maf-like protein; Region: Maf; pfam02545 272942000240 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272942000241 active site 272942000242 dimer interface [polypeptide binding]; other site 272942000243 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 272942000244 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272942000245 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272942000246 shikimate binding site; other site 272942000247 NAD(P) binding site [chemical binding]; other site 272942000248 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 272942000249 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272942000250 CoA-binding site [chemical binding]; other site 272942000251 ATP-binding [chemical binding]; other site 272942000252 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 272942000253 active site 272942000254 catalytic site [active] 272942000255 substrate binding site [chemical binding]; other site 272942000256 quinolinate synthetase; Provisional; Region: PRK09375 272942000257 L-aspartate oxidase; Provisional; Region: PRK07512 272942000258 L-aspartate oxidase; Provisional; Region: PRK06175 272942000259 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272942000260 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 272942000261 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 272942000262 dimerization interface [polypeptide binding]; other site 272942000263 active site 272942000264 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 272942000265 putative active site [active] 272942000266 Ap4A binding site [chemical binding]; other site 272942000267 nudix motif; other site 272942000268 putative metal binding site [ion binding]; other site 272942000269 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 272942000270 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272942000271 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 272942000272 protein binding site [polypeptide binding]; other site 272942000273 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272942000274 Catalytic dyad [active] 272942000275 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 272942000276 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942000277 phosphoglyceromutase; Provisional; Region: PRK05434 272942000278 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 272942000279 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 272942000280 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 272942000281 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272942000282 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272942000283 substrate binding site [chemical binding]; other site 272942000284 ligand binding site [chemical binding]; other site 272942000285 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 272942000286 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 272942000287 substrate binding site [chemical binding]; other site 272942000288 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272942000289 putative catalytic site [active] 272942000290 putative phosphate binding site [ion binding]; other site 272942000291 putative metal binding site [ion binding]; other site 272942000292 tartrate dehydrogenase; Region: TTC; TIGR02089 272942000293 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 272942000294 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942000295 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272942000296 putative homodimer interface [polypeptide binding]; other site 272942000297 putative homotetramer interface [polypeptide binding]; other site 272942000298 putative metal binding site [ion binding]; other site 272942000299 putative homodimer-homodimer interface [polypeptide binding]; other site 272942000300 putative allosteric switch controlling residues; other site 272942000301 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 272942000302 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272942000303 FeoA domain; Region: FeoA; pfam04023 272942000304 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 272942000305 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 272942000306 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272942000307 G1 box; other site 272942000308 GTP/Mg2+ binding site [chemical binding]; other site 272942000309 Switch I region; other site 272942000310 G2 box; other site 272942000311 G3 box; other site 272942000312 Switch II region; other site 272942000313 G4 box; other site 272942000314 Nucleoside recognition; Region: Gate; pfam07670 272942000315 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272942000316 FeoC like transcriptional regulator; Region: FeoC; pfam09012 272942000317 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 272942000318 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942000319 Walker A/P-loop; other site 272942000320 ATP binding site [chemical binding]; other site 272942000321 Q-loop/lid; other site 272942000322 ABC transporter signature motif; other site 272942000323 Walker B; other site 272942000324 D-loop; other site 272942000325 H-loop/switch region; other site 272942000326 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942000327 putative PBP binding regions; other site 272942000328 ABC-ATPase subunit interface; other site 272942000329 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942000330 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942000331 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942000332 intersubunit interface [polypeptide binding]; other site 272942000333 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 272942000334 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 272942000335 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942000336 N-terminal plug; other site 272942000337 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 272942000338 ligand-binding site [chemical binding]; other site 272942000339 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942000340 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942000341 Walker A/P-loop; other site 272942000342 ATP binding site [chemical binding]; other site 272942000343 Q-loop/lid; other site 272942000344 ABC transporter signature motif; other site 272942000345 Walker B; other site 272942000346 D-loop; other site 272942000347 H-loop/switch region; other site 272942000348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000349 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272942000350 Walker A/P-loop; other site 272942000351 ATP binding site [chemical binding]; other site 272942000352 Q-loop/lid; other site 272942000353 ABC transporter signature motif; other site 272942000354 Walker B; other site 272942000355 D-loop; other site 272942000356 H-loop/switch region; other site 272942000357 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942000358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942000359 dimer interface [polypeptide binding]; other site 272942000360 conserved gate region; other site 272942000361 putative PBP binding loops; other site 272942000362 ABC-ATPase subunit interface; other site 272942000363 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942000364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942000365 dimer interface [polypeptide binding]; other site 272942000366 conserved gate region; other site 272942000367 putative PBP binding loops; other site 272942000368 ABC-ATPase subunit interface; other site 272942000369 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 272942000370 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942000371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 272942000372 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 272942000373 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942000374 Walker A/P-loop; other site 272942000375 ATP binding site [chemical binding]; other site 272942000376 Q-loop/lid; other site 272942000377 ABC transporter signature motif; other site 272942000378 Walker B; other site 272942000379 D-loop; other site 272942000380 H-loop/switch region; other site 272942000381 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942000382 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942000383 dimer interface [polypeptide binding]; other site 272942000384 putative PBP binding regions; other site 272942000385 ABC-ATPase subunit interface; other site 272942000386 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942000387 intersubunit interface [polypeptide binding]; other site 272942000388 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 272942000389 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 272942000390 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 272942000391 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942000392 N-terminal plug; other site 272942000393 ligand-binding site [chemical binding]; other site 272942000394 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942000395 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 272942000396 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272942000397 catalytic site [active] 272942000398 putative active site [active] 272942000399 putative substrate binding site [chemical binding]; other site 272942000400 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 272942000401 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 272942000402 putative active site [active] 272942000403 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 272942000404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 272942000405 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 272942000406 OstA-like protein; Region: OstA; pfam03968 272942000407 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 272942000408 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 272942000409 Walker A/P-loop; other site 272942000410 ATP binding site [chemical binding]; other site 272942000411 Q-loop/lid; other site 272942000412 ABC transporter signature motif; other site 272942000413 Walker B; other site 272942000414 D-loop; other site 272942000415 H-loop/switch region; other site 272942000416 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 272942000417 30S subunit binding site; other site 272942000418 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272942000419 active site 272942000420 phosphorylation site [posttranslational modification] 272942000421 Core-2/I-Branching enzyme; Region: Branch; pfam02485 272942000422 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942000423 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942000424 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272942000425 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272942000426 NAD binding site [chemical binding]; other site 272942000427 homodimer interface [polypeptide binding]; other site 272942000428 active site 272942000429 substrate binding site [chemical binding]; other site 272942000430 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272942000431 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 272942000432 active site 272942000433 tetramer interface; other site 272942000434 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 272942000435 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 272942000436 Ligand binding site; other site 272942000437 oligomer interface; other site 272942000438 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 272942000439 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272942000440 active site 272942000441 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272942000442 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942000443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942000444 DNA binding site [nucleotide binding] 272942000445 domain linker motif; other site 272942000446 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 272942000447 putative dimerization interface [polypeptide binding]; other site 272942000448 putative ligand binding site [chemical binding]; other site 272942000449 hypothetical protein; Provisional; Region: PRK01254 272942000450 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 272942000451 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 272942000452 16S rRNA methyltransferase B; Provisional; Region: PRK14901 272942000453 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942000454 S-adenosylmethionine binding site [chemical binding]; other site 272942000455 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 272942000456 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272942000457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942000459 Walker A/P-loop; other site 272942000460 ATP binding site [chemical binding]; other site 272942000461 Q-loop/lid; other site 272942000462 ABC transporter signature motif; other site 272942000463 Walker B; other site 272942000464 D-loop; other site 272942000465 H-loop/switch region; other site 272942000466 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 272942000467 dimer interface [polypeptide binding]; other site 272942000468 Alkaline phosphatase homologues; Region: alkPPc; smart00098 272942000469 active site 272942000470 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 272942000471 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 272942000472 putative active site [active] 272942000473 putative PHP Thumb interface [polypeptide binding]; other site 272942000474 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 272942000475 generic binding surface I; other site 272942000476 generic binding surface II; other site 272942000477 DNA Polymerase Y-family; Region: PolY_like; cd03468 272942000478 active site 272942000479 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 272942000480 DNA binding site [nucleotide binding] 272942000481 Uncharacterized conserved protein [Function unknown]; Region: COG4544 272942000482 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 272942000483 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272942000484 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942000485 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272942000486 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272942000487 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272942000488 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272942000489 Ligand binding site [chemical binding]; other site 272942000490 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272942000491 short chain dehydrogenase; Provisional; Region: PRK05993 272942000492 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 272942000493 NADP binding site [chemical binding]; other site 272942000494 active site 272942000495 steroid binding site; other site 272942000496 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 272942000497 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 272942000498 CAP-like domain; other site 272942000499 active site 272942000500 primary dimer interface [polypeptide binding]; other site 272942000501 elongation factor Tu; Reviewed; Region: PRK00049 272942000502 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272942000503 G1 box; other site 272942000504 GEF interaction site [polypeptide binding]; other site 272942000505 GTP/Mg2+ binding site [chemical binding]; other site 272942000506 Switch I region; other site 272942000507 G2 box; other site 272942000508 G3 box; other site 272942000509 Switch II region; other site 272942000510 G4 box; other site 272942000511 G5 box; other site 272942000512 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 272942000513 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 272942000514 Antibiotic Binding Site [chemical binding]; other site 272942000515 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 272942000516 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942000517 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942000518 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942000519 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 272942000520 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 272942000521 acyl-activating enzyme (AAE) consensus motif; other site 272942000522 AMP binding site [chemical binding]; other site 272942000523 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 272942000524 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 272942000525 putative active site [active] 272942000526 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 272942000527 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 272942000528 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942000529 FeS/SAM binding site; other site 272942000530 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272942000531 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 272942000532 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 272942000533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272942000534 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272942000535 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942000536 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000537 Walker A/P-loop; other site 272942000538 ATP binding site [chemical binding]; other site 272942000539 Q-loop/lid; other site 272942000540 ABC transporter signature motif; other site 272942000541 Walker B; other site 272942000542 D-loop; other site 272942000543 H-loop/switch region; other site 272942000544 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942000545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000546 Walker A/P-loop; other site 272942000547 ATP binding site [chemical binding]; other site 272942000548 ABC transporter signature motif; other site 272942000549 Walker B; other site 272942000550 D-loop; other site 272942000551 H-loop/switch region; other site 272942000552 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272942000553 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272942000554 DHHW protein; Region: DHHW; pfam14286 272942000555 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 272942000556 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 272942000557 active site 272942000558 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000559 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 272942000560 Transglycosylase; Region: Transgly; cl17702 272942000561 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 272942000562 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 272942000563 active site 272942000564 dimer interface [polypeptide binding]; other site 272942000565 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 272942000566 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 272942000567 active site 272942000568 FMN binding site [chemical binding]; other site 272942000569 substrate binding site [chemical binding]; other site 272942000570 3Fe-4S cluster binding site [ion binding]; other site 272942000571 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 272942000572 domain interface; other site 272942000573 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 272942000574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272942000575 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 272942000576 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 272942000577 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 272942000578 putative NAD(P) binding site [chemical binding]; other site 272942000579 active site 272942000580 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272942000581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 272942000582 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 272942000583 Tropomyosin like; Region: Tropomyosin_1; pfam12718 272942000584 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 272942000585 putative ligand binding site [chemical binding]; other site 272942000586 putative catalytic site [active] 272942000587 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 272942000588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942000589 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272942000590 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 272942000591 active site 272942000592 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 272942000593 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 272942000594 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272942000595 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 272942000596 Walker A/P-loop; other site 272942000597 ATP binding site [chemical binding]; other site 272942000598 Q-loop/lid; other site 272942000599 ABC transporter signature motif; other site 272942000600 Walker B; other site 272942000601 D-loop; other site 272942000602 H-loop/switch region; other site 272942000603 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 272942000604 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272942000605 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 272942000606 Probable Catalytic site; other site 272942000607 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272942000608 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272942000609 substrate binding site; other site 272942000610 tetramer interface; other site 272942000611 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272942000612 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272942000613 NADP binding site [chemical binding]; other site 272942000614 active site 272942000615 putative substrate binding site [chemical binding]; other site 272942000616 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272942000617 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272942000618 NAD binding site [chemical binding]; other site 272942000619 substrate binding site [chemical binding]; other site 272942000620 homodimer interface [polypeptide binding]; other site 272942000621 active site 272942000622 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 272942000623 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000624 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000625 threonine dehydratase; Validated; Region: PRK08639 272942000626 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 272942000627 tetramer interface [polypeptide binding]; other site 272942000628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942000629 catalytic residue [active] 272942000630 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 272942000631 putative Ile/Val binding site [chemical binding]; other site 272942000632 Hpt domain; Region: Hpt; pfam01627 272942000633 putative binding surface; other site 272942000634 active site 272942000635 Response regulator receiver domain; Region: Response_reg; pfam00072 272942000636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942000637 active site 272942000638 phosphorylation site [posttranslational modification] 272942000639 intermolecular recognition site; other site 272942000640 dimerization interface [polypeptide binding]; other site 272942000641 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 272942000642 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942000643 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942000644 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942000645 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 272942000646 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942000647 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 272942000648 Walker A/P-loop; other site 272942000649 ATP binding site [chemical binding]; other site 272942000650 Q-loop/lid; other site 272942000651 ABC transporter signature motif; other site 272942000652 Walker B; other site 272942000653 D-loop; other site 272942000654 H-loop/switch region; other site 272942000655 Outer membrane efflux protein; Region: OEP; pfam02321 272942000656 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 272942000657 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 272942000658 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 272942000659 nudix motif; other site 272942000660 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 272942000661 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272942000662 dimerization interface [polypeptide binding]; other site 272942000663 domain crossover interface; other site 272942000664 redox-dependent activation switch; other site 272942000665 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 272942000666 putative active site [active] 272942000667 putative CoA binding site [chemical binding]; other site 272942000668 nudix motif; other site 272942000669 metal binding site [ion binding]; metal-binding site 272942000670 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 272942000671 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272942000672 active site 272942000673 NTP binding site [chemical binding]; other site 272942000674 metal binding triad [ion binding]; metal-binding site 272942000675 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942000676 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942000677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942000678 Walker A/P-loop; other site 272942000679 ATP binding site [chemical binding]; other site 272942000680 Q-loop/lid; other site 272942000681 ABC transporter signature motif; other site 272942000682 Walker B; other site 272942000683 D-loop; other site 272942000684 H-loop/switch region; other site 272942000685 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272942000686 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942000687 S-adenosylmethionine binding site [chemical binding]; other site 272942000688 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942000689 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272942000690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942000691 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942000692 ferrochelatase; Reviewed; Region: hemH; PRK00035 272942000693 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 272942000694 C-terminal domain interface [polypeptide binding]; other site 272942000695 active site 272942000696 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 272942000697 active site 272942000698 N-terminal domain interface [polypeptide binding]; other site 272942000699 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272942000700 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942000701 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272942000702 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 272942000703 GSH binding site [chemical binding]; other site 272942000704 catalytic residues [active] 272942000705 nitrilase; Region: PLN02798 272942000706 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 272942000707 putative active site [active] 272942000708 catalytic triad [active] 272942000709 dimer interface [polypeptide binding]; other site 272942000710 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272942000711 MarR family; Region: MarR_2; pfam12802 272942000712 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272942000713 DNA methylase; Region: N6_N4_Mtase; pfam01555 272942000714 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272942000715 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942000716 active site 272942000717 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 272942000718 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 272942000719 dimer interface [polypeptide binding]; other site 272942000720 active site 272942000721 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942000722 catalytic residues [active] 272942000723 substrate binding site [chemical binding]; other site 272942000724 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 272942000725 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 272942000726 NAD(P) binding pocket [chemical binding]; other site 272942000727 argininosuccinate synthase; Provisional; Region: PRK13820 272942000728 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 272942000729 ANP binding site [chemical binding]; other site 272942000730 Substrate Binding Site II [chemical binding]; other site 272942000731 Substrate Binding Site I [chemical binding]; other site 272942000732 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 272942000733 MPT binding site; other site 272942000734 trimer interface [polypeptide binding]; other site 272942000735 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 272942000736 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942000737 S-adenosylmethionine binding site [chemical binding]; other site 272942000738 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 272942000739 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272942000740 Sm and related proteins; Region: Sm_like; cl00259 272942000741 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 272942000742 putative oligomer interface [polypeptide binding]; other site 272942000743 putative RNA binding site [nucleotide binding]; other site 272942000744 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 272942000745 NusA N-terminal domain; Region: NusA_N; pfam08529 272942000746 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 272942000747 RNA binding site [nucleotide binding]; other site 272942000748 homodimer interface [polypeptide binding]; other site 272942000749 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 272942000750 G-X-X-G motif; other site 272942000751 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 272942000752 G-X-X-G motif; other site 272942000753 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 272942000754 hypothetical protein; Provisional; Region: PRK09190 272942000755 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 272942000756 putative RNA binding cleft [nucleotide binding]; other site 272942000757 translation initiation factor IF-2; Region: IF-2; TIGR00487 272942000758 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272942000759 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 272942000760 G1 box; other site 272942000761 putative GEF interaction site [polypeptide binding]; other site 272942000762 GTP/Mg2+ binding site [chemical binding]; other site 272942000763 Switch I region; other site 272942000764 G2 box; other site 272942000765 G3 box; other site 272942000766 Switch II region; other site 272942000767 G4 box; other site 272942000768 G5 box; other site 272942000769 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 272942000770 Translation-initiation factor 2; Region: IF-2; pfam11987 272942000771 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 272942000772 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 272942000773 active site 272942000774 8-oxo-dGMP binding site [chemical binding]; other site 272942000775 nudix motif; other site 272942000776 metal binding site [ion binding]; metal-binding site 272942000777 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 272942000778 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 272942000779 heterotetramer interface [polypeptide binding]; other site 272942000780 active site pocket [active] 272942000781 cleavage site 272942000782 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272942000783 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 272942000784 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272942000785 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 272942000786 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 272942000787 nucleotide binding region [chemical binding]; other site 272942000788 ATP-binding site [chemical binding]; other site 272942000789 SEC-C motif; Region: SEC-C; pfam02810 272942000790 DNA repair protein radc; Region: radc; TIGR00608 272942000791 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272942000792 MPN+ (JAMM) motif; other site 272942000793 Zinc-binding site [ion binding]; other site 272942000794 chaperone protein DnaJ; Provisional; Region: PRK10767 272942000795 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 272942000796 HSP70 interaction site [polypeptide binding]; other site 272942000797 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 272942000798 substrate binding site [polypeptide binding]; other site 272942000799 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272942000800 Zn binding sites [ion binding]; other site 272942000801 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272942000802 dimer interface [polypeptide binding]; other site 272942000803 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272942000804 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 272942000805 nucleotide binding site [chemical binding]; other site 272942000806 NEF interaction site [polypeptide binding]; other site 272942000807 SBD interface [polypeptide binding]; other site 272942000808 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 272942000809 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 272942000810 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942000811 minor groove reading motif; other site 272942000812 helix-hairpin-helix signature motif; other site 272942000813 substrate binding pocket [chemical binding]; other site 272942000814 active site 272942000815 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 272942000816 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 272942000817 DNA binding and oxoG recognition site [nucleotide binding] 272942000818 Protein of unknown function (DUF721); Region: DUF721; pfam05258 272942000819 Thioredoxin; Region: Thioredoxin_4; pfam13462 272942000820 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 272942000821 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 272942000822 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 272942000823 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 272942000824 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942000825 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 272942000826 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272942000827 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 272942000828 Metal-binding active site; metal-binding site 272942000829 Predicted ATPase [General function prediction only]; Region: COG1485 272942000830 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 272942000831 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 272942000832 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272942000833 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942000834 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272942000835 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 272942000836 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 272942000837 CAAX protease self-immunity; Region: Abi; pfam02517 272942000838 hypothetical protein; Provisional; Region: PRK10621 272942000839 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942000840 L-asparaginase II; Region: Asparaginase_II; pfam06089 272942000841 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272942000842 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 272942000843 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942000844 FeS/SAM binding site; other site 272942000845 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 272942000846 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 272942000847 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 272942000848 trimer interface [polypeptide binding]; other site 272942000849 active site 272942000850 substrate binding site [chemical binding]; other site 272942000851 CoA binding site [chemical binding]; other site 272942000852 Transglycosylase SLT domain; Region: SLT_2; pfam13406 272942000853 murein hydrolase B; Provisional; Region: PRK10760; cl17906 272942000854 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942000855 NnrU protein; Region: NnrU; pfam07298 272942000856 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942000857 EamA-like transporter family; Region: EamA; pfam00892 272942000858 EamA-like transporter family; Region: EamA; pfam00892 272942000859 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272942000860 IHF dimer interface [polypeptide binding]; other site 272942000861 IHF - DNA interface [nucleotide binding]; other site 272942000862 AMP nucleosidase; Provisional; Region: PRK08292 272942000863 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 272942000864 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 272942000865 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272942000866 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 272942000867 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 272942000868 active site 272942000869 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 272942000870 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942000871 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 272942000872 putative NAD(P) binding site [chemical binding]; other site 272942000873 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942000874 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942000875 putative substrate translocation pore; other site 272942000876 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 272942000877 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 272942000878 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942000879 Lipopolysaccharide-assembly; Region: LptE; pfam04390 272942000880 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272942000881 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272942000882 HIGH motif; other site 272942000883 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272942000884 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942000885 active site 272942000886 KMSKS motif; other site 272942000887 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272942000888 tRNA binding surface [nucleotide binding]; other site 272942000889 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 272942000890 Gram-negative porin; Region: Porin_4; pfam13609 272942000891 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272942000892 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942000893 catalytic residue [active] 272942000894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 272942000895 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 272942000896 dimerization interface [polypeptide binding]; other site 272942000897 active site 272942000898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942000899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942000900 active site 272942000901 phosphorylation site [posttranslational modification] 272942000902 intermolecular recognition site; other site 272942000903 dimerization interface [polypeptide binding]; other site 272942000904 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942000905 DNA binding site [nucleotide binding] 272942000906 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 272942000907 RmuC family; Region: RmuC; pfam02646 272942000908 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272942000909 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942000910 ATP binding site [chemical binding]; other site 272942000911 Mg2+ binding site [ion binding]; other site 272942000912 G-X-G motif; other site 272942000913 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 272942000914 ATP binding site [chemical binding]; other site 272942000915 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 272942000916 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942000917 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942000918 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942000919 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272942000920 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942000921 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 272942000922 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272942000923 lipoprotein signal peptidase; Provisional; Region: PRK14787 272942000924 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272942000925 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 272942000926 purine monophosphate binding site [chemical binding]; other site 272942000927 dimer interface [polypeptide binding]; other site 272942000928 putative catalytic residues [active] 272942000929 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 272942000930 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 272942000931 NusB family; Region: NusB; pfam01029 272942000932 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 272942000933 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942000934 S-adenosylmethionine binding site [chemical binding]; other site 272942000935 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 272942000936 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 272942000937 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272942000938 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 272942000939 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272942000940 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 272942000941 Predicted periplasmic protein [Function unknown]; Region: COG3698 272942000942 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 272942000943 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 272942000944 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 272942000945 RNA binding site [nucleotide binding]; other site 272942000946 active site 272942000947 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 272942000948 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 272942000949 16S/18S rRNA binding site [nucleotide binding]; other site 272942000950 S13e-L30e interaction site [polypeptide binding]; other site 272942000951 25S rRNA binding site [nucleotide binding]; other site 272942000952 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 272942000953 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942000954 NAD binding site [chemical binding]; other site 272942000955 catalytic residues [active] 272942000956 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272942000957 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 272942000958 RNase E interface [polypeptide binding]; other site 272942000959 trimer interface [polypeptide binding]; other site 272942000960 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272942000961 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 272942000962 RNase E interface [polypeptide binding]; other site 272942000963 trimer interface [polypeptide binding]; other site 272942000964 active site 272942000965 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 272942000966 putative nucleic acid binding region [nucleotide binding]; other site 272942000967 G-X-X-G motif; other site 272942000968 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 272942000969 RNA binding site [nucleotide binding]; other site 272942000970 domain interface; other site 272942000971 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 272942000972 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272942000973 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272942000974 putative homodimer interface [polypeptide binding]; other site 272942000975 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 272942000976 heterodimer interface [polypeptide binding]; other site 272942000977 homodimer interface [polypeptide binding]; other site 272942000978 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272942000979 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 272942000980 23S rRNA interface [nucleotide binding]; other site 272942000981 L7/L12 interface [polypeptide binding]; other site 272942000982 putative thiostrepton binding site; other site 272942000983 L25 interface [polypeptide binding]; other site 272942000984 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 272942000985 mRNA/rRNA interface [nucleotide binding]; other site 272942000986 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 272942000987 23S rRNA interface [nucleotide binding]; other site 272942000988 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272942000989 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 272942000990 core dimer interface [polypeptide binding]; other site 272942000991 peripheral dimer interface [polypeptide binding]; other site 272942000992 L10 interface [polypeptide binding]; other site 272942000993 L11 interface [polypeptide binding]; other site 272942000994 putative EF-Tu interaction site [polypeptide binding]; other site 272942000995 putative EF-G interaction site [polypeptide binding]; other site 272942000996 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 272942000997 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 272942000998 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272942000999 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 272942001000 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 272942001001 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 272942001002 RPB3 interaction site [polypeptide binding]; other site 272942001003 RPB1 interaction site [polypeptide binding]; other site 272942001004 RPB11 interaction site [polypeptide binding]; other site 272942001005 RPB10 interaction site [polypeptide binding]; other site 272942001006 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272942001007 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 272942001008 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 272942001009 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272942001010 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272942001011 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 272942001012 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 272942001013 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272942001014 DNA binding site [nucleotide binding] 272942001015 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272942001016 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 272942001017 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 272942001018 S17 interaction site [polypeptide binding]; other site 272942001019 S8 interaction site; other site 272942001020 16S rRNA interaction site [nucleotide binding]; other site 272942001021 streptomycin interaction site [chemical binding]; other site 272942001022 23S rRNA interaction site [nucleotide binding]; other site 272942001023 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272942001024 30S ribosomal protein S7; Validated; Region: PRK05302 272942001025 elongation factor G; Reviewed; Region: PRK00007 272942001026 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272942001027 G1 box; other site 272942001028 putative GEF interaction site [polypeptide binding]; other site 272942001029 GTP/Mg2+ binding site [chemical binding]; other site 272942001030 Switch I region; other site 272942001031 G2 box; other site 272942001032 G3 box; other site 272942001033 Switch II region; other site 272942001034 G4 box; other site 272942001035 G5 box; other site 272942001036 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 272942001037 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 272942001038 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 272942001039 elongation factor Tu; Reviewed; Region: PRK00049 272942001040 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272942001041 G1 box; other site 272942001042 GEF interaction site [polypeptide binding]; other site 272942001043 GTP/Mg2+ binding site [chemical binding]; other site 272942001044 Switch I region; other site 272942001045 G2 box; other site 272942001046 G3 box; other site 272942001047 Switch II region; other site 272942001048 G4 box; other site 272942001049 G5 box; other site 272942001050 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 272942001051 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 272942001052 Antibiotic Binding Site [chemical binding]; other site 272942001053 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 272942001054 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 272942001055 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 272942001056 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 272942001057 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272942001058 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272942001059 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272942001060 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 272942001061 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 272942001062 putative translocon binding site; other site 272942001063 protein-rRNA interface [nucleotide binding]; other site 272942001064 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272942001065 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 272942001066 G-X-X-G motif; other site 272942001067 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272942001068 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 272942001069 23S rRNA interface [nucleotide binding]; other site 272942001070 5S rRNA interface [nucleotide binding]; other site 272942001071 putative antibiotic binding site [chemical binding]; other site 272942001072 L25 interface [polypeptide binding]; other site 272942001073 L27 interface [polypeptide binding]; other site 272942001074 serine/threonine protein kinase; Provisional; Region: PRK14879 272942001075 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 272942001076 23S rRNA interface [nucleotide binding]; other site 272942001077 putative translocon interaction site; other site 272942001078 signal recognition particle (SRP54) interaction site; other site 272942001079 L23 interface [polypeptide binding]; other site 272942001080 trigger factor interaction site; other site 272942001081 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 272942001082 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 272942001083 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 272942001084 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 272942001085 RNA binding site [nucleotide binding]; other site 272942001086 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272942001087 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272942001088 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272942001089 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 272942001090 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 272942001091 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272942001092 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272942001093 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272942001094 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 272942001095 5S rRNA interface [nucleotide binding]; other site 272942001096 23S rRNA interface [nucleotide binding]; other site 272942001097 L5 interface [polypeptide binding]; other site 272942001098 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272942001099 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272942001100 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272942001101 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 272942001102 23S rRNA binding site [nucleotide binding]; other site 272942001103 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 272942001104 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272942001105 SecY translocase; Region: SecY; pfam00344 272942001106 adenylate kinase; Reviewed; Region: adk; PRK00279 272942001107 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 272942001108 AMP-binding site [chemical binding]; other site 272942001109 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272942001110 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 272942001111 30S ribosomal protein S13; Region: bact_S13; TIGR03631 272942001112 30S ribosomal protein S11; Validated; Region: PRK05309 272942001113 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272942001114 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272942001115 alphaNTD - beta interaction site [polypeptide binding]; other site 272942001116 alphaNTD homodimer interface [polypeptide binding]; other site 272942001117 alphaNTD - beta' interaction site [polypeptide binding]; other site 272942001118 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 272942001119 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 272942001120 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942001121 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 272942001122 Autoinducer synthetase; Region: Autoind_synth; cl17404 272942001123 recombination factor protein RarA; Reviewed; Region: PRK13342 272942001124 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001125 Walker A motif; other site 272942001126 ATP binding site [chemical binding]; other site 272942001127 Walker B motif; other site 272942001128 arginine finger; other site 272942001129 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272942001130 camphor resistance protein CrcB; Provisional; Region: PRK14209 272942001131 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272942001132 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942001133 RNA binding surface [nucleotide binding]; other site 272942001134 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272942001135 active site 272942001136 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942001137 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942001138 motif II; other site 272942001139 ATP12 chaperone protein; Region: ATP12; cl02228 272942001140 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 272942001141 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942001142 substrate binding pocket [chemical binding]; other site 272942001143 membrane-bound complex binding site; other site 272942001144 hinge residues; other site 272942001145 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 272942001146 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 272942001147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942001148 dimer interface [polypeptide binding]; other site 272942001149 ABC-ATPase subunit interface; other site 272942001150 putative PBP binding loops; other site 272942001151 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942001152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942001153 dimer interface [polypeptide binding]; other site 272942001154 conserved gate region; other site 272942001155 putative PBP binding loops; other site 272942001156 ABC-ATPase subunit interface; other site 272942001157 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272942001158 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272942001159 Walker A/P-loop; other site 272942001160 ATP binding site [chemical binding]; other site 272942001161 Q-loop/lid; other site 272942001162 ABC transporter signature motif; other site 272942001163 Walker B; other site 272942001164 D-loop; other site 272942001165 H-loop/switch region; other site 272942001166 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272942001167 catalytic core [active] 272942001168 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 272942001169 feedback inhibition sensing region; other site 272942001170 homohexameric interface [polypeptide binding]; other site 272942001171 nucleotide binding site [chemical binding]; other site 272942001172 N-acetyl-L-glutamate binding site [chemical binding]; other site 272942001173 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942001174 classical (c) SDRs; Region: SDR_c; cd05233 272942001175 NAD(P) binding site [chemical binding]; other site 272942001176 active site 272942001177 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 272942001178 G1 box; other site 272942001179 GTP/Mg2+ binding site [chemical binding]; other site 272942001180 Switch I region; other site 272942001181 G2 box; other site 272942001182 G3 box; other site 272942001183 Switch II region; other site 272942001184 G4 box; other site 272942001185 G5 box; other site 272942001186 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 272942001187 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 272942001188 MOSC domain; Region: MOSC; pfam03473 272942001189 membrane protein insertase; Provisional; Region: PRK01318 272942001190 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 272942001191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001192 I-site; other site 272942001193 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942001194 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 272942001195 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 272942001196 Ligand Binding Site [chemical binding]; other site 272942001197 Haemolytic domain; Region: Haemolytic; pfam01809 272942001198 Ribonuclease P; Region: Ribonuclease_P; pfam00825 272942001199 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 272942001200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942001201 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 272942001202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942001203 ATP binding site [chemical binding]; other site 272942001204 Mg2+ binding site [ion binding]; other site 272942001205 G-X-G motif; other site 272942001206 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 272942001207 active site 272942001208 homodimer interface [polypeptide binding]; other site 272942001209 peptidase T; Region: peptidase-T; TIGR01882 272942001210 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 272942001211 metal binding site [ion binding]; metal-binding site 272942001212 dimer interface [polypeptide binding]; other site 272942001213 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272942001214 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272942001215 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 272942001216 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 272942001217 RNA binding site [nucleotide binding]; other site 272942001218 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942001219 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942001220 ligand binding site [chemical binding]; other site 272942001221 flexible hinge region; other site 272942001222 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942001223 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942001224 metal binding triad; other site 272942001225 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 272942001226 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272942001227 Walker A/P-loop; other site 272942001228 ATP binding site [chemical binding]; other site 272942001229 Q-loop/lid; other site 272942001230 ABC transporter signature motif; other site 272942001231 Walker B; other site 272942001232 D-loop; other site 272942001233 H-loop/switch region; other site 272942001234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272942001235 FtsX-like permease family; Region: FtsX; pfam02687 272942001236 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942001237 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942001238 Protein of Unknown function (DUF1690); Region: DUF1690; pfam07956 272942001239 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942001240 ATPase MipZ; Region: MipZ; pfam09140 272942001241 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272942001242 P-loop; other site 272942001243 Magnesium ion binding site [ion binding]; other site 272942001244 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 272942001245 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 272942001246 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 272942001247 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 272942001248 RimM N-terminal domain; Region: RimM; pfam01782 272942001249 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 272942001250 PRC-barrel domain; Region: PRC; pfam05239 272942001251 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 272942001252 chorismate mutase; Provisional; Region: PRK09239 272942001253 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272942001254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272942001255 signal recognition particle protein; Provisional; Region: PRK10867 272942001256 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 272942001257 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942001258 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272942001259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942001261 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942001262 dimerization interface [polypeptide binding]; other site 272942001263 OpgC protein; Region: OpgC_C; pfam10129 272942001264 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 272942001265 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272942001266 Ligand binding site; other site 272942001267 DXD motif; other site 272942001268 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 272942001269 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 272942001270 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 272942001271 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 272942001272 transmembrane helices; other site 272942001273 aminotransferase; Validated; Region: PRK07046 272942001274 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942001275 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942001276 catalytic residue [active] 272942001277 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942001278 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942001279 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 272942001280 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272942001281 dimer interface [polypeptide binding]; other site 272942001282 active site 272942001283 catalytic residue [active] 272942001284 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272942001285 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942001286 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942001287 catalytic residue [active] 272942001288 Uncharacterized conserved protein [Function unknown]; Region: COG4121 272942001289 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001290 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272942001291 glutamate--cysteine ligase; Region: PLN02611 272942001292 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 272942001293 RNA methyltransferase, RsmE family; Region: TIGR00046 272942001294 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 272942001295 UbiA prenyltransferase family; Region: UbiA; pfam01040 272942001296 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942001297 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942001298 ligand binding site [chemical binding]; other site 272942001299 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 272942001300 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272942001301 tandem repeat interface [polypeptide binding]; other site 272942001302 oligomer interface [polypeptide binding]; other site 272942001303 active site residues [active] 272942001304 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272942001305 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272942001306 GIY-YIG motif/motif A; other site 272942001307 active site 272942001308 catalytic site [active] 272942001309 putative DNA binding site [nucleotide binding]; other site 272942001310 metal binding site [ion binding]; metal-binding site 272942001311 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272942001312 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 272942001313 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942001314 FeS/SAM binding site; other site 272942001315 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 272942001316 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272942001317 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 272942001318 dihydroorotase; Validated; Region: PRK09059 272942001319 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 272942001320 active site 272942001321 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272942001322 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272942001323 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272942001324 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272942001325 Fe-S cluster binding site [ion binding]; other site 272942001326 active site 272942001327 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 272942001328 Putative transcriptional regulator [Transcription]; Region: COG1678 272942001329 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 272942001330 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 272942001331 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942001332 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942001333 active site 272942001334 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272942001335 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272942001336 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 272942001337 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 272942001338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942001339 Coenzyme A binding pocket [chemical binding]; other site 272942001340 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272942001341 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 272942001342 putative active site pocket [active] 272942001343 cleavage site 272942001344 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942001345 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 272942001346 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 272942001347 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 272942001348 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272942001349 tetramerization interface [polypeptide binding]; other site 272942001350 NAD(P) binding site [chemical binding]; other site 272942001351 catalytic residues [active] 272942001352 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 272942001353 C factor cell-cell signaling protein; Provisional; Region: PRK09009 272942001354 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 272942001355 NADP binding site [chemical binding]; other site 272942001356 homodimer interface [polypeptide binding]; other site 272942001357 active site 272942001358 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001359 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942001360 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272942001361 dimerization interface [polypeptide binding]; other site 272942001362 EamA-like transporter family; Region: EamA; pfam00892 272942001363 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272942001364 EamA-like transporter family; Region: EamA; pfam00892 272942001365 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942001366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942001367 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272942001368 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 272942001369 putative active site [active] 272942001370 putative FMN binding site [chemical binding]; other site 272942001371 putative substrate binding site [chemical binding]; other site 272942001372 putative catalytic residue [active] 272942001373 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942001374 pyruvate kinase; Validated; Region: PRK08187 272942001375 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 272942001376 active site 272942001377 domain interfaces; other site 272942001378 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 272942001379 aspartate kinase; Reviewed; Region: PRK06635 272942001380 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 272942001381 putative nucleotide binding site [chemical binding]; other site 272942001382 putative catalytic residues [active] 272942001383 putative Mg ion binding site [ion binding]; other site 272942001384 putative aspartate binding site [chemical binding]; other site 272942001385 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 272942001386 putative allosteric regulatory site; other site 272942001387 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 272942001388 putative allosteric regulatory residue; other site 272942001389 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 272942001390 GAF domain; Region: GAF; pfam01590 272942001391 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272942001392 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272942001393 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272942001394 Peptidase family M48; Region: Peptidase_M48; cl12018 272942001395 pantoate--beta-alanine ligase; Region: panC; TIGR00018 272942001396 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272942001397 active site 272942001398 ATP-binding site [chemical binding]; other site 272942001399 pantoate-binding site; other site 272942001400 HXXH motif; other site 272942001401 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 272942001402 oligomerization interface [polypeptide binding]; other site 272942001403 active site 272942001404 metal binding site [ion binding]; metal-binding site 272942001405 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 272942001406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942001407 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942001408 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272942001409 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272942001410 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 272942001411 active site 272942001412 multidrug efflux protein; Reviewed; Region: PRK09579 272942001413 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942001414 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942001415 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 272942001416 acyl-CoA esterase; Provisional; Region: PRK10673 272942001417 PGAP1-like protein; Region: PGAP1; pfam07819 272942001418 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272942001419 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 272942001420 dimer interface [polypeptide binding]; other site 272942001421 active site 272942001422 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272942001423 folate binding site [chemical binding]; other site 272942001424 ATP-NAD kinase; Region: NAD_kinase; pfam01513 272942001425 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 272942001426 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942001427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942001428 active site 272942001429 phosphorylation site [posttranslational modification] 272942001430 intermolecular recognition site; other site 272942001431 dimerization interface [polypeptide binding]; other site 272942001432 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001433 Walker A motif; other site 272942001434 ATP binding site [chemical binding]; other site 272942001435 Walker B motif; other site 272942001436 arginine finger; other site 272942001437 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942001438 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942001439 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 272942001440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942001441 ATP binding site [chemical binding]; other site 272942001442 Mg2+ binding site [ion binding]; other site 272942001443 G-X-G motif; other site 272942001444 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942001445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942001446 active site 272942001447 phosphorylation site [posttranslational modification] 272942001448 intermolecular recognition site; other site 272942001449 dimerization interface [polypeptide binding]; other site 272942001450 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 272942001451 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942001452 acyl-activating enzyme (AAE) consensus motif; other site 272942001453 AMP binding site [chemical binding]; other site 272942001454 active site 272942001455 CoA binding site [chemical binding]; other site 272942001456 malic enzyme; Reviewed; Region: PRK12862 272942001457 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272942001458 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272942001459 putative NAD(P) binding site [chemical binding]; other site 272942001460 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 272942001461 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 272942001462 active site 272942001463 catalytic motif [active] 272942001464 Zn binding site [ion binding]; other site 272942001465 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 272942001466 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272942001467 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272942001468 phosphopentomutase; Provisional; Region: PRK05362 272942001469 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 272942001470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942001471 active site 272942001472 Sporulation related domain; Region: SPOR; pfam05036 272942001473 EamA-like transporter family; Region: EamA; pfam00892 272942001474 EamA-like transporter family; Region: EamA; cl17759 272942001475 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 272942001476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942001477 dimer interface [polypeptide binding]; other site 272942001478 conserved gate region; other site 272942001479 putative PBP binding loops; other site 272942001480 ABC-ATPase subunit interface; other site 272942001481 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942001482 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942001483 substrate binding pocket [chemical binding]; other site 272942001484 membrane-bound complex binding site; other site 272942001485 hinge residues; other site 272942001486 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272942001487 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 272942001488 ATP binding site [chemical binding]; other site 272942001489 substrate interface [chemical binding]; other site 272942001490 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272942001491 trimer interface [polypeptide binding]; other site 272942001492 active site 272942001493 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272942001494 Flavoprotein; Region: Flavoprotein; pfam02441 272942001495 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 272942001496 Protein of unknown function, DUF399; Region: DUF399; pfam04187 272942001497 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 272942001498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942001499 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 272942001500 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942001501 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942001502 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 272942001503 putative N-terminal domain interface [polypeptide binding]; other site 272942001504 putative dimer interface [polypeptide binding]; other site 272942001505 putative substrate binding pocket (H-site) [chemical binding]; other site 272942001506 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272942001507 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272942001508 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001509 Walker A motif; other site 272942001510 ATP binding site [chemical binding]; other site 272942001511 Walker B motif; other site 272942001512 arginine finger; other site 272942001513 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 272942001514 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272942001515 glutathione synthetase; Provisional; Region: PRK05246 272942001516 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 272942001517 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 272942001518 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 272942001519 Predicted methyltransferases [General function prediction only]; Region: COG0313 272942001520 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 272942001521 putative SAM binding site [chemical binding]; other site 272942001522 putative homodimer interface [polypeptide binding]; other site 272942001523 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 272942001524 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272942001525 putative ligand binding site [chemical binding]; other site 272942001526 PII uridylyl-transferase; Provisional; Region: PRK05092 272942001527 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942001528 metal binding triad; other site 272942001529 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942001530 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272942001531 Zn2+ binding site [ion binding]; other site 272942001532 Mg2+ binding site [ion binding]; other site 272942001533 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 272942001534 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 272942001535 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 272942001536 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 272942001537 Rhomboid family; Region: Rhomboid; cl11446 272942001538 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272942001539 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272942001540 active site 272942001541 HIGH motif; other site 272942001542 dimer interface [polypeptide binding]; other site 272942001543 KMSKS motif; other site 272942001544 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 272942001545 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 272942001546 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272942001547 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 272942001548 CoenzymeA binding site [chemical binding]; other site 272942001549 subunit interaction site [polypeptide binding]; other site 272942001550 PHB binding site; other site 272942001551 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272942001552 CoenzymeA binding site [chemical binding]; other site 272942001553 subunit interaction site [polypeptide binding]; other site 272942001554 PHB binding site; other site 272942001555 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 272942001556 DNA binding residues [nucleotide binding] 272942001557 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272942001558 putative dimer interface [polypeptide binding]; other site 272942001559 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 272942001560 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 272942001561 DNA binding residues [nucleotide binding] 272942001562 putative dimer interface [polypeptide binding]; other site 272942001563 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 272942001564 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 272942001565 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942001566 active site 272942001567 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272942001568 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 272942001569 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 272942001570 B1 nucleotide binding pocket [chemical binding]; other site 272942001571 B2 nucleotide binding pocket [chemical binding]; other site 272942001572 CAS motifs; other site 272942001573 active site 272942001574 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 272942001575 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 272942001576 NAD(P) binding site [chemical binding]; other site 272942001577 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 272942001578 COQ9; Region: COQ9; pfam08511 272942001579 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 272942001580 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942001581 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942001582 dimer interface [polypeptide binding]; other site 272942001583 putative CheW interface [polypeptide binding]; other site 272942001584 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942001585 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942001586 dimerization interface [polypeptide binding]; other site 272942001587 putative DNA binding site [nucleotide binding]; other site 272942001588 putative Zn2+ binding site [ion binding]; other site 272942001589 AsnC family; Region: AsnC_trans_reg; pfam01037 272942001590 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 272942001591 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 272942001592 hexamer interface [polypeptide binding]; other site 272942001593 ligand binding site [chemical binding]; other site 272942001594 putative active site [active] 272942001595 NAD(P) binding site [chemical binding]; other site 272942001596 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 272942001597 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 272942001598 C-terminal domain interface [polypeptide binding]; other site 272942001599 GSH binding site (G-site) [chemical binding]; other site 272942001600 dimer interface [polypeptide binding]; other site 272942001601 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 272942001602 dimer interface [polypeptide binding]; other site 272942001603 N-terminal domain interface [polypeptide binding]; other site 272942001604 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272942001605 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 272942001606 active site 272942001607 dimerization interface [polypeptide binding]; other site 272942001608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942001609 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942001610 putative substrate translocation pore; other site 272942001611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942001613 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 272942001614 putative dimerization interface [polypeptide binding]; other site 272942001615 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 272942001616 FAD binding site [chemical binding]; other site 272942001617 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272942001618 CoenzymeA binding site [chemical binding]; other site 272942001619 subunit interaction site [polypeptide binding]; other site 272942001620 PHB binding site; other site 272942001621 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 272942001622 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 272942001623 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 272942001624 dimer interface [polypeptide binding]; other site 272942001625 active site 272942001626 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942001627 catalytic residues [active] 272942001628 substrate binding site [chemical binding]; other site 272942001629 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 272942001630 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 272942001631 AsnC family; Region: AsnC_trans_reg; pfam01037 272942001632 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 272942001633 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272942001634 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 272942001635 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272942001636 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942001637 active site 272942001638 HIGH motif; other site 272942001639 nucleotide binding site [chemical binding]; other site 272942001640 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272942001641 active site 272942001642 KMSKS motif; other site 272942001643 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272942001644 tRNA binding surface [nucleotide binding]; other site 272942001645 anticodon binding site; other site 272942001646 hypothetical protein; Validated; Region: PRK08238 272942001647 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 272942001648 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272942001649 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942001650 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942001651 catalytic residue [active] 272942001652 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 272942001653 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 272942001654 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 272942001655 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 272942001656 BON domain; Region: BON; pfam04972 272942001657 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272942001658 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942001659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942001660 ligand binding site [chemical binding]; other site 272942001661 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272942001662 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 272942001663 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942001664 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 272942001665 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 272942001666 ATP binding site [chemical binding]; other site 272942001667 Walker A motif; other site 272942001668 hexamer interface [polypeptide binding]; other site 272942001669 Walker B motif; other site 272942001670 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 272942001671 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272942001672 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 272942001673 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272942001674 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942001675 TPR motif; other site 272942001676 binding surface 272942001677 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272942001678 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272942001679 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 272942001680 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942001681 TPR motif; other site 272942001682 binding surface 272942001683 TPR repeat; Region: TPR_11; pfam13414 272942001684 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942001685 binding surface 272942001686 TPR motif; other site 272942001687 TPR repeat; Region: TPR_11; pfam13414 272942001688 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942001689 binding surface 272942001690 TPR motif; other site 272942001691 TPR repeat; Region: TPR_11; pfam13414 272942001692 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 272942001693 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942001694 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 272942001695 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272942001696 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272942001697 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272942001698 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 272942001699 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942001700 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942001701 catalytic residue [active] 272942001702 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 272942001703 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272942001704 dimer interface [polypeptide binding]; other site 272942001705 active site 272942001706 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 272942001707 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 272942001708 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942001709 substrate binding site [chemical binding]; other site 272942001710 oxyanion hole (OAH) forming residues; other site 272942001711 trimer interface [polypeptide binding]; other site 272942001712 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272942001713 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942001714 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942001715 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 272942001716 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 272942001717 active site 272942001718 Zn binding site [ion binding]; other site 272942001719 Cation efflux family; Region: Cation_efflux; cl00316 272942001720 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272942001721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 272942001722 Bacterial SH3 domain; Region: SH3_4; pfam06347 272942001723 Bacterial SH3 domain; Region: SH3_4; pfam06347 272942001724 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272942001725 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 272942001726 dimerization interface [polypeptide binding]; other site 272942001727 ligand binding site [chemical binding]; other site 272942001728 NADP binding site [chemical binding]; other site 272942001729 catalytic site [active] 272942001730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001731 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942001732 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 272942001733 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942001734 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 272942001735 active site 272942001736 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272942001737 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 272942001738 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001739 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 272942001740 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272942001741 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942001742 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942001743 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272942001744 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942001745 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942001746 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 272942001747 IMP binding site; other site 272942001748 dimer interface [polypeptide binding]; other site 272942001749 partial ornithine binding site; other site 272942001750 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272942001751 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 272942001752 dimer interface [polypeptide binding]; other site 272942001753 anticodon binding site; other site 272942001754 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942001755 motif 1; other site 272942001756 dimer interface [polypeptide binding]; other site 272942001757 active site 272942001758 motif 2; other site 272942001759 GAD domain; Region: GAD; pfam02938 272942001760 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942001761 active site 272942001762 motif 3; other site 272942001763 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 272942001764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 272942001765 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942001766 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272942001767 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942001768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942001769 active site 272942001770 phosphorylation site [posttranslational modification] 272942001771 intermolecular recognition site; other site 272942001772 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272942001773 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 272942001774 dimer interface [polypeptide binding]; other site 272942001775 substrate binding site [chemical binding]; other site 272942001776 metal binding site [ion binding]; metal-binding site 272942001777 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 272942001778 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272942001779 FMN binding site [chemical binding]; other site 272942001780 dimer interface [polypeptide binding]; other site 272942001781 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 272942001782 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 272942001783 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942001784 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942001785 NAD(P) binding site [chemical binding]; other site 272942001786 catalytic residues [active] 272942001787 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 272942001788 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942001789 NAD(P) binding site [chemical binding]; other site 272942001790 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272942001791 intersubunit interface [polypeptide binding]; other site 272942001792 active site 272942001793 catalytic residue [active] 272942001794 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 272942001795 putative GSH binding site [chemical binding]; other site 272942001796 catalytic residues [active] 272942001797 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 272942001798 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 272942001799 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 272942001800 dimerization interface [polypeptide binding]; other site 272942001801 ATP binding site [chemical binding]; other site 272942001802 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 272942001803 dimerization interface [polypeptide binding]; other site 272942001804 ATP binding site [chemical binding]; other site 272942001805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942001807 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272942001808 putative effector binding pocket; other site 272942001809 dimerization interface [polypeptide binding]; other site 272942001810 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272942001811 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 272942001812 Protein of unknown function (DUF805); Region: DUF805; pfam05656 272942001813 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 272942001814 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 272942001815 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 272942001816 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 272942001817 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 272942001818 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 272942001819 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 272942001820 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272942001821 active site 272942001822 HIGH motif; other site 272942001823 KMSKS motif; other site 272942001824 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272942001825 tRNA binding surface [nucleotide binding]; other site 272942001826 anticodon binding site; other site 272942001827 PAS fold; Region: PAS; pfam00989 272942001828 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942001829 putative active site [active] 272942001830 heme pocket [chemical binding]; other site 272942001831 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001832 metal binding site [ion binding]; metal-binding site 272942001833 active site 272942001834 I-site; other site 272942001835 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942001836 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942001837 S-adenosylmethionine binding site [chemical binding]; other site 272942001838 ModE molybdate transport repressor domain; Region: ModE_repress; TIGR00637 272942001839 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 272942001840 molybdenum-pterin binding domain; Region: Mop; TIGR00638 272942001841 molybdenum-pterin binding domain; Region: Mop; TIGR00638 272942001842 ModE molybdate transport repressor domain; Region: ModE_repress; TIGR00637 272942001843 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 272942001844 molybdenum-pterin binding domain; Region: Mop; TIGR00638 272942001845 molybdenum-pterin binding domain; Region: Mop; TIGR00638 272942001846 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272942001847 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 272942001848 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272942001849 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942001850 dimer interface [polypeptide binding]; other site 272942001851 conserved gate region; other site 272942001852 putative PBP binding loops; other site 272942001853 ABC-ATPase subunit interface; other site 272942001854 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 272942001855 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 272942001856 Walker A/P-loop; other site 272942001857 ATP binding site [chemical binding]; other site 272942001858 Q-loop/lid; other site 272942001859 ABC transporter signature motif; other site 272942001860 Walker B; other site 272942001861 D-loop; other site 272942001862 H-loop/switch region; other site 272942001863 TOBE domain; Region: TOBE; pfam03459 272942001864 molybdenum transport protein ModD; Provisional; Region: PRK06096 272942001865 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 272942001866 active site 272942001867 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 272942001868 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942001869 FeS/SAM binding site; other site 272942001870 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 272942001871 Nif-specific regulatory protein; Region: nifA; TIGR01817 272942001872 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 272942001873 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001874 Walker A motif; other site 272942001875 ATP binding site [chemical binding]; other site 272942001876 Walker B motif; other site 272942001877 arginine finger; other site 272942001878 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942001879 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272942001880 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 272942001881 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272942001882 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272942001883 NifU-like domain; Region: NifU; pfam01106 272942001884 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 272942001885 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 272942001886 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 272942001887 MoFe protein beta/alpha subunit interactions; other site 272942001888 Beta subunit P cluster binding residues; other site 272942001889 MoFe protein beta subunit/Fe protein contacts; other site 272942001890 MoFe protein dimer/ dimer interactions; other site 272942001891 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 272942001892 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 272942001893 MoFe protein alpha/beta subunit interactions; other site 272942001894 Alpha subunit P cluster binding residues; other site 272942001895 FeMoco binding residues [chemical binding]; other site 272942001896 MoFe protein alpha subunit/Fe protein contacts; other site 272942001897 MoFe protein dimer/ dimer interactions; other site 272942001898 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 272942001899 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 272942001900 Nucleotide-binding sites [chemical binding]; other site 272942001901 Walker A motif; other site 272942001902 Switch I region of nucleotide binding site; other site 272942001903 Fe4S4 binding sites [ion binding]; other site 272942001904 Switch II region of nucleotide binding site; other site 272942001905 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 272942001906 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942001907 catalytic loop [active] 272942001908 iron binding site [ion binding]; other site 272942001909 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942001910 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 272942001911 ligand binding site [chemical binding]; other site 272942001912 flexible hinge region; other site 272942001913 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 272942001914 non-specific DNA interactions [nucleotide binding]; other site 272942001915 DNA binding site [nucleotide binding] 272942001916 sequence specific DNA binding site [nucleotide binding]; other site 272942001917 putative cAMP binding site [chemical binding]; other site 272942001918 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 272942001919 MoxR-like ATPases [General function prediction only]; Region: COG0714 272942001920 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 272942001921 Walker A motif; other site 272942001922 ATP binding site [chemical binding]; other site 272942001923 Walker B motif; other site 272942001924 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 272942001925 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 272942001926 multimerization interface [polypeptide binding]; other site 272942001927 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 272942001928 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 272942001929 dimer interface [polypeptide binding]; other site 272942001930 catalytic residue [active] 272942001931 metal binding site [ion binding]; metal-binding site 272942001932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942001934 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 272942001935 putative dimerization interface [polypeptide binding]; other site 272942001936 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 272942001937 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 272942001938 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942001939 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942001940 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 272942001941 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 272942001942 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 272942001943 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001944 Walker A motif; other site 272942001945 ATP binding site [chemical binding]; other site 272942001946 Walker B motif; other site 272942001947 arginine finger; other site 272942001948 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942001949 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; Region: Fer4_NifH; pfam00142 272942001950 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 272942001951 Nucleotide-binding sites [chemical binding]; other site 272942001952 Switch I region of nucleotide binding site; other site 272942001953 Fe4S4 binding sites [ion binding]; other site 272942001954 Switch II region of nucleotide binding site; other site 272942001955 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 272942001956 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 272942001957 Fe-only nitrogenase, delta subunit; Region: anfG_nitrog; TIGR02929 272942001958 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272942001959 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272942001960 Fe-only nitrogenase accessory protein AnfO; Region: anfO_nitrog; TIGR02940 272942001961 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 272942001962 putative active site pocket [active] 272942001963 dimerization interface [polypeptide binding]; other site 272942001964 putative catalytic residue [active] 272942001965 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 272942001966 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 272942001967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 272942001968 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 272942001969 MoxR-like ATPases [General function prediction only]; Region: COG0714 272942001970 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942001971 ATP binding site [chemical binding]; other site 272942001972 Walker A motif; other site 272942001973 Walker B motif; other site 272942001974 arginine finger; other site 272942001975 Protein of unknown function DUF58; Region: DUF58; pfam01882 272942001976 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272942001977 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 272942001978 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 272942001979 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942001980 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272942001981 metal binding site [ion binding]; metal-binding site 272942001982 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 272942001983 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 272942001984 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 272942001985 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272942001986 active site 272942001987 dimer interface [polypeptide binding]; other site 272942001988 effector binding site; other site 272942001989 TSCPD domain; Region: TSCPD; pfam12637 272942001990 manganese transport protein MntH; Reviewed; Region: PRK00701 272942001991 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272942001992 manganese transport regulator MntR; Provisional; Region: PRK11050 272942001993 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 272942001994 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272942001995 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272942001996 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 272942001997 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 272942001998 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 272942001999 potassium uptake protein; Region: kup; TIGR00794 272942002000 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942002001 DNA-binding site [nucleotide binding]; DNA binding site 272942002002 RNA-binding motif; other site 272942002003 nickel responsive regulator; Provisional; Region: PRK02967 272942002004 hypothetical protein; Region: PHA01748 272942002005 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 272942002006 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 272942002007 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 272942002008 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942002009 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 272942002010 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942002011 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942002012 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272942002013 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942002014 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942002015 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942002016 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272942002017 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942002018 Walker A/P-loop; other site 272942002019 ATP binding site [chemical binding]; other site 272942002020 Q-loop/lid; other site 272942002021 ABC transporter signature motif; other site 272942002022 Walker B; other site 272942002023 D-loop; other site 272942002024 H-loop/switch region; other site 272942002025 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272942002026 Walker A/P-loop; other site 272942002027 ATP binding site [chemical binding]; other site 272942002028 Q-loop/lid; other site 272942002029 ABC transporter signature motif; other site 272942002030 Walker B; other site 272942002031 D-loop; other site 272942002032 H-loop/switch region; other site 272942002033 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272942002034 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 272942002035 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272942002036 Response regulator receiver domain; Region: Response_reg; pfam00072 272942002037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942002038 active site 272942002039 phosphorylation site [posttranslational modification] 272942002040 intermolecular recognition site; other site 272942002041 dimerization interface [polypeptide binding]; other site 272942002042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942002043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002044 metal binding site [ion binding]; metal-binding site 272942002045 active site 272942002046 I-site; other site 272942002047 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942002048 CHASE4 domain; Region: CHASE4; pfam05228 272942002049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942002050 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 272942002051 ATP binding site [chemical binding]; other site 272942002052 Mg2+ binding site [ion binding]; other site 272942002053 G-X-G motif; other site 272942002054 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272942002055 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 272942002056 dimer interface [polypeptide binding]; other site 272942002057 putative functional site; other site 272942002058 putative MPT binding site; other site 272942002059 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272942002060 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272942002061 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942002062 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942002063 substrate binding pocket [chemical binding]; other site 272942002064 membrane-bound complex binding site; other site 272942002065 hinge residues; other site 272942002066 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942002067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002068 ABC-ATPase subunit interface; other site 272942002069 putative PBP binding loops; other site 272942002070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002071 dimer interface [polypeptide binding]; other site 272942002072 conserved gate region; other site 272942002073 putative PBP binding loops; other site 272942002074 ABC-ATPase subunit interface; other site 272942002075 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 272942002076 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272942002077 Walker A/P-loop; other site 272942002078 ATP binding site [chemical binding]; other site 272942002079 Q-loop/lid; other site 272942002080 ABC transporter signature motif; other site 272942002081 Walker B; other site 272942002082 D-loop; other site 272942002083 H-loop/switch region; other site 272942002084 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 272942002085 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 272942002086 active site 272942002087 octamer interface [polypeptide binding]; other site 272942002088 Uncharacterized conserved protein [Function unknown]; Region: COG3375 272942002089 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 272942002090 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272942002091 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942002092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942002093 Walker A/P-loop; other site 272942002094 ATP binding site [chemical binding]; other site 272942002095 Q-loop/lid; other site 272942002096 ABC transporter signature motif; other site 272942002097 Walker B; other site 272942002098 D-loop; other site 272942002099 H-loop/switch region; other site 272942002100 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 272942002101 metal ion-dependent adhesion site (MIDAS); other site 272942002102 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 272942002103 Virulence factor SrfB; Region: SrfB; pfam07520 272942002104 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272942002105 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272942002106 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942002107 PAS fold; Region: PAS_4; pfam08448 272942002108 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002109 putative active site [active] 272942002110 heme pocket [chemical binding]; other site 272942002111 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942002112 PAS domain; Region: PAS_9; pfam13426 272942002113 putative active site [active] 272942002114 heme pocket [chemical binding]; other site 272942002115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942002116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002117 metal binding site [ion binding]; metal-binding site 272942002118 active site 272942002119 I-site; other site 272942002120 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942002121 Nitrate and nitrite sensing; Region: NIT; pfam08376 272942002122 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002123 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942002124 dimer interface [polypeptide binding]; other site 272942002125 putative CheW interface [polypeptide binding]; other site 272942002126 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002127 PAS fold; Region: PAS_3; pfam08447 272942002128 putative active site [active] 272942002129 heme pocket [chemical binding]; other site 272942002130 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002131 PAS fold; Region: PAS_3; pfam08447 272942002132 putative active site [active] 272942002133 heme pocket [chemical binding]; other site 272942002134 PAS fold; Region: PAS; pfam00989 272942002135 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002136 putative active site [active] 272942002137 heme pocket [chemical binding]; other site 272942002138 PAS fold; Region: PAS_3; pfam08447 272942002139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942002140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002141 metal binding site [ion binding]; metal-binding site 272942002142 active site 272942002143 I-site; other site 272942002144 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942002145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942002146 Coenzyme A binding pocket [chemical binding]; other site 272942002147 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272942002148 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942002149 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272942002150 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942002151 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 272942002152 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 272942002153 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 272942002154 Sulfatase; Region: Sulfatase; pfam00884 272942002155 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942002156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942002157 active site 272942002158 phosphorylation site [posttranslational modification] 272942002159 intermolecular recognition site; other site 272942002160 dimerization interface [polypeptide binding]; other site 272942002161 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942002162 DNA binding site [nucleotide binding] 272942002163 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942002164 phosphorylation site [posttranslational modification] 272942002165 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 272942002166 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272942002167 ABC1 family; Region: ABC1; pfam03109 272942002168 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 272942002169 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 272942002170 Bacterial PH domain; Region: DUF304; pfam03703 272942002171 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 272942002172 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cd00226 272942002173 subunit C interaction residues; other site 272942002174 subunit M interaction residues [polypeptide binding]; other site 272942002175 subunit L interaction residues [polypeptide binding]; other site 272942002176 putative proton transfer pathway, P1; other site 272942002177 putative proton transfer pathway, P2; other site 272942002178 PUCC protein; Region: PUCC; pfam03209 272942002179 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 272942002180 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942002181 S-adenosylmethionine binding site [chemical binding]; other site 272942002182 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 272942002183 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 272942002184 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 272942002185 P-loop; other site 272942002186 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 272942002187 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272942002188 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 272942002189 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 272942002190 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 272942002191 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 272942002192 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 272942002193 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 272942002194 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 272942002195 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 272942002196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002197 putative active site [active] 272942002198 heme pocket [chemical binding]; other site 272942002199 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002200 putative active site [active] 272942002201 heme pocket [chemical binding]; other site 272942002202 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942002203 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 272942002204 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272942002205 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942002206 FeS/SAM binding site; other site 272942002207 V4R domain; Region: V4R; cl15268 272942002208 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 272942002209 UbiA prenyltransferase family; Region: UbiA; pfam01040 272942002210 PUCC protein; Region: PUCC; pfam03209 272942002211 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 272942002212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272942002213 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 272942002214 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 272942002215 active site 272942002216 metal binding site [ion binding]; metal-binding site 272942002217 nudix motif; other site 272942002218 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 272942002219 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 272942002220 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 272942002221 metal ion-dependent adhesion site (MIDAS); other site 272942002222 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 272942002223 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942002224 Walker A motif; other site 272942002225 ATP binding site [chemical binding]; other site 272942002226 Walker B motif; other site 272942002227 arginine finger; other site 272942002228 phytoene desaturase; Region: crtI_fam; TIGR02734 272942002229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272942002230 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942002231 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272942002232 active site lid residues [active] 272942002233 substrate binding pocket [chemical binding]; other site 272942002234 catalytic residues [active] 272942002235 substrate-Mg2+ binding site; other site 272942002236 aspartate-rich region 1; other site 272942002237 aspartate-rich region 2; other site 272942002238 TspO/MBR family; Region: TspO_MBR; pfam03073 272942002239 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 272942002240 phytoene desaturase; Region: crtI_fam; TIGR02734 272942002241 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272942002242 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942002243 substrate binding pocket [chemical binding]; other site 272942002244 chain length determination region; other site 272942002245 substrate-Mg2+ binding site; other site 272942002246 catalytic residues [active] 272942002247 aspartate-rich region 1; other site 272942002248 active site lid residues [active] 272942002249 aspartate-rich region 2; other site 272942002250 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 272942002251 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942002252 S-adenosylmethionine binding site [chemical binding]; other site 272942002253 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 272942002254 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 272942002255 putative NAD(P) binding site [chemical binding]; other site 272942002256 Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L...; Region: BchX; cd02033 272942002257 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 272942002258 P-loop; other site 272942002259 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 272942002260 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272942002261 Chlide_reductase_Z : Z subunit of chlorophyllide (chlide) reductase (BchZ). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Z; cd01982 272942002262 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 272942002263 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 272942002264 PufQ cytochrome subunit; Region: PufQ; pfam05398 272942002265 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 272942002266 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 272942002267 subunit M interface; other site 272942002268 subunit H interface; other site 272942002269 quinone binding site; other site 272942002270 bacteriopheophytin binding site; other site 272942002271 bacteriochlorophyll binding site; other site 272942002272 cytochrome C subunit interface; other site 272942002273 Fe binding site [ion binding]; other site 272942002274 photosynthetic reaction center subunit M; Provisional; Region: PRK14504 272942002275 pheophytin binding site; other site 272942002276 chlorophyll binding site; other site 272942002277 quinone binding site; other site 272942002278 Fe binding site [ion binding]; other site 272942002279 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 272942002280 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 272942002281 TPP-binding site; other site 272942002282 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 272942002283 PYR/PP interface [polypeptide binding]; other site 272942002284 dimer interface [polypeptide binding]; other site 272942002285 TPP binding site [chemical binding]; other site 272942002286 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942002287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 272942002288 Anti-sigma-K factor rskA; Region: RskA; pfam10099 272942002289 RNA polymerase sigma factor; Provisional; Region: PRK12514 272942002290 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942002291 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272942002292 catalytic residues [active] 272942002293 dimer interface [polypeptide binding]; other site 272942002294 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 272942002295 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 272942002296 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 272942002297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942002298 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272942002299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002300 dimer interface [polypeptide binding]; other site 272942002301 conserved gate region; other site 272942002302 putative PBP binding loops; other site 272942002303 ABC-ATPase subunit interface; other site 272942002304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942002305 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002306 dimer interface [polypeptide binding]; other site 272942002307 conserved gate region; other site 272942002308 putative PBP binding loops; other site 272942002309 ABC-ATPase subunit interface; other site 272942002310 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272942002311 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 272942002312 peptide binding site [polypeptide binding]; other site 272942002313 dimer interface [polypeptide binding]; other site 272942002314 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272942002315 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942002316 Walker A/P-loop; other site 272942002317 ATP binding site [chemical binding]; other site 272942002318 Q-loop/lid; other site 272942002319 ABC transporter signature motif; other site 272942002320 Walker B; other site 272942002321 D-loop; other site 272942002322 H-loop/switch region; other site 272942002323 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 272942002324 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272942002325 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942002326 Walker A/P-loop; other site 272942002327 ATP binding site [chemical binding]; other site 272942002328 Q-loop/lid; other site 272942002329 ABC transporter signature motif; other site 272942002330 Walker B; other site 272942002331 D-loop; other site 272942002332 H-loop/switch region; other site 272942002333 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002334 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942002335 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272942002336 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942002337 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272942002338 metal binding site [ion binding]; metal-binding site 272942002339 putative dimer interface [polypeptide binding]; other site 272942002340 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272942002341 Ligand Binding Site [chemical binding]; other site 272942002342 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 272942002343 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942002344 FeS/SAM binding site; other site 272942002345 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272942002346 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942002347 kynureninase; Region: kynureninase; TIGR01814 272942002348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942002349 catalytic residue [active] 272942002350 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 272942002351 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 272942002352 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 272942002353 ligand binding site [chemical binding]; other site 272942002354 homodimer interface [polypeptide binding]; other site 272942002355 NAD(P) binding site [chemical binding]; other site 272942002356 trimer interface B [polypeptide binding]; other site 272942002357 trimer interface A [polypeptide binding]; other site 272942002358 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 272942002359 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 272942002360 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 272942002361 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942002362 malate dehydrogenase; Reviewed; Region: PRK06223 272942002363 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 272942002364 NAD(P) binding site [chemical binding]; other site 272942002365 dimer interface [polypeptide binding]; other site 272942002366 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942002367 substrate binding site [chemical binding]; other site 272942002368 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942002369 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 272942002370 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 272942002371 CoA-ligase; Region: Ligase_CoA; pfam00549 272942002372 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272942002373 CoA binding domain; Region: CoA_binding; pfam02629 272942002374 CoA-ligase; Region: Ligase_CoA; pfam00549 272942002375 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 272942002376 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 272942002377 TPP-binding site [chemical binding]; other site 272942002378 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 272942002379 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 272942002380 E3 interaction surface; other site 272942002381 lipoyl attachment site [posttranslational modification]; other site 272942002382 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 272942002383 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 272942002384 E3 interaction surface; other site 272942002385 lipoyl attachment site [posttranslational modification]; other site 272942002386 e3 binding domain; Region: E3_binding; pfam02817 272942002387 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 272942002388 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 272942002389 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942002390 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942002391 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 272942002392 NnrU protein; Region: NnrU; pfam07298 272942002393 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 272942002394 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 272942002395 putative active site [active] 272942002396 putative catalytic site [active] 272942002397 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 272942002398 putative active site [active] 272942002399 putative catalytic site [active] 272942002400 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 272942002401 Iron-sulfur protein interface; other site 272942002402 proximal quinone binding site [chemical binding]; other site 272942002403 SdhD (CybS) interface [polypeptide binding]; other site 272942002404 proximal heme binding site [chemical binding]; other site 272942002405 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 272942002406 putative SdhC subunit interface [polypeptide binding]; other site 272942002407 putative proximal heme binding site [chemical binding]; other site 272942002408 putative Iron-sulfur protein interface [polypeptide binding]; other site 272942002409 putative proximal quinone binding site; other site 272942002410 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 272942002411 L-aspartate oxidase; Provisional; Region: PRK06175 272942002412 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272942002413 Protein of unknown function (DUF563); Region: DUF563; pfam04577 272942002414 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 272942002415 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942002416 catalytic loop [active] 272942002417 iron binding site [ion binding]; other site 272942002418 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272942002419 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942002420 putative DNA binding site [nucleotide binding]; other site 272942002421 putative Zn2+ binding site [ion binding]; other site 272942002422 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 272942002423 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 272942002424 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 272942002425 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 272942002426 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 272942002427 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 272942002428 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 272942002429 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 272942002430 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 272942002431 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 272942002432 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 272942002433 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 272942002434 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 272942002435 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 272942002436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942002437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942002438 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942002439 dimerization interface [polypeptide binding]; other site 272942002440 CTP synthetase; Validated; Region: pyrG; PRK05380 272942002441 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 272942002442 Catalytic site [active] 272942002443 active site 272942002444 UTP binding site [chemical binding]; other site 272942002445 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272942002446 active site 272942002447 putative oxyanion hole; other site 272942002448 catalytic triad [active] 272942002449 Preprotein translocase SecG subunit; Region: SecG; pfam03840 272942002450 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 272942002451 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 272942002452 GDP-binding site [chemical binding]; other site 272942002453 ACT binding site; other site 272942002454 IMP binding site; other site 272942002455 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 272942002456 Thiamine pyrophosphokinase; Region: TPK; cl08415 272942002457 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 272942002458 active site 272942002459 dimerization interface [polypeptide binding]; other site 272942002460 thiamine binding site [chemical binding]; other site 272942002461 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942002462 EamA-like transporter family; Region: EamA; cl17759 272942002463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942002464 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 272942002465 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 272942002466 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 272942002467 HAMP domain; Region: HAMP; pfam00672 272942002468 dimerization interface [polypeptide binding]; other site 272942002469 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002470 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942002471 dimer interface [polypeptide binding]; other site 272942002472 putative CheW interface [polypeptide binding]; other site 272942002473 Cache domain; Region: Cache_2; pfam08269 272942002474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942002476 dimer interface [polypeptide binding]; other site 272942002477 putative CheW interface [polypeptide binding]; other site 272942002478 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 272942002479 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 272942002480 nickel binding site [ion binding]; other site 272942002481 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942002482 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002483 putative active site [active] 272942002484 heme pocket [chemical binding]; other site 272942002485 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942002486 dimer interface [polypeptide binding]; other site 272942002487 phosphorylation site [posttranslational modification] 272942002488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942002489 ATP binding site [chemical binding]; other site 272942002490 Mg2+ binding site [ion binding]; other site 272942002491 G-X-G motif; other site 272942002492 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 272942002493 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 272942002494 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 272942002495 Acylphosphatase; Region: Acylphosphatase; pfam00708 272942002496 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 272942002497 HypF finger; Region: zf-HYPF; pfam07503 272942002498 HypF finger; Region: zf-HYPF; pfam07503 272942002499 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 272942002500 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 272942002501 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 272942002502 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 272942002503 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 272942002504 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 272942002505 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 272942002506 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 272942002507 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 272942002508 putative substrate-binding site; other site 272942002509 nickel binding site [ion binding]; other site 272942002510 HupF/HypC family; Region: HupF_HypC; pfam01455 272942002511 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 272942002512 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 272942002513 Rubredoxin; Region: Rubredoxin; pfam00301 272942002514 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 272942002515 iron binding site [ion binding]; other site 272942002516 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 272942002517 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 272942002518 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 272942002519 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942002520 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942002521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942002522 active site 272942002523 phosphorylation site [posttranslational modification] 272942002524 intermolecular recognition site; other site 272942002525 dimerization interface [polypeptide binding]; other site 272942002526 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942002527 Walker A motif; other site 272942002528 ATP binding site [chemical binding]; other site 272942002529 Walker B motif; other site 272942002530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942002531 HupF/HypC family; Region: HupF_HypC; cl00394 272942002532 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 272942002533 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 272942002534 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 272942002535 dimerization interface [polypeptide binding]; other site 272942002536 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 272942002537 ATP binding site [chemical binding]; other site 272942002538 CheB methylesterase; Region: CheB_methylest; pfam01339 272942002539 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272942002540 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272942002541 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 272942002542 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 272942002543 PAS domain; Region: PAS_10; pfam13596 272942002544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002545 putative active site [active] 272942002546 heme pocket [chemical binding]; other site 272942002547 PAS fold; Region: PAS_4; pfam08448 272942002548 PAS fold; Region: PAS_4; pfam08448 272942002549 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942002550 putative active site [active] 272942002551 heme pocket [chemical binding]; other site 272942002552 PAS domain; Region: PAS_9; pfam13426 272942002553 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942002554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002555 metal binding site [ion binding]; metal-binding site 272942002556 active site 272942002557 I-site; other site 272942002558 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942002559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 272942002560 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 272942002561 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 272942002562 putative ligand binding site [chemical binding]; other site 272942002563 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942002564 TM-ABC transporter signature motif; other site 272942002565 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942002566 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942002567 TM-ABC transporter signature motif; other site 272942002568 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 272942002569 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942002570 Walker A/P-loop; other site 272942002571 ATP binding site [chemical binding]; other site 272942002572 Q-loop/lid; other site 272942002573 ABC transporter signature motif; other site 272942002574 Walker B; other site 272942002575 D-loop; other site 272942002576 H-loop/switch region; other site 272942002577 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272942002578 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272942002579 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 272942002580 XdhC Rossmann domain; Region: XdhC_C; pfam13478 272942002581 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 272942002582 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 272942002583 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272942002584 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 272942002585 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942002586 catalytic loop [active] 272942002587 iron binding site [ion binding]; other site 272942002588 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272942002589 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 272942002590 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272942002591 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 272942002592 putative active site [active] 272942002593 putative PHP Thumb interface [polypeptide binding]; other site 272942002594 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 272942002595 generic binding surface II; other site 272942002596 generic binding surface I; other site 272942002597 SlyX; Region: SlyX; cl01090 272942002598 histidyl-tRNA synthetase; Region: hisS; TIGR00442 272942002599 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 272942002600 dimer interface [polypeptide binding]; other site 272942002601 motif 1; other site 272942002602 motif 2; other site 272942002603 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942002604 active site 272942002605 motif 3; other site 272942002606 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 272942002607 anticodon binding site; other site 272942002608 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 272942002609 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942002610 motif 1; other site 272942002611 dimer interface [polypeptide binding]; other site 272942002612 active site 272942002613 motif 2; other site 272942002614 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942002615 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 272942002616 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 272942002617 putative ligand binding site [chemical binding]; other site 272942002618 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272942002619 NAD binding site [chemical binding]; other site 272942002620 dimerization interface [polypeptide binding]; other site 272942002621 catalytic site [active] 272942002622 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 272942002623 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272942002624 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272942002625 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272942002626 rod shape-determining protein MreC; Provisional; Region: PRK13922 272942002627 rod shape-determining protein MreC; Region: MreC; pfam04085 272942002628 rod shape-determining protein MreB; Provisional; Region: PRK13927 272942002629 MreB and similar proteins; Region: MreB_like; cd10225 272942002630 nucleotide binding site [chemical binding]; other site 272942002631 Mg binding site [ion binding]; other site 272942002632 putative protofilament interaction site [polypeptide binding]; other site 272942002633 RodZ interaction site [polypeptide binding]; other site 272942002634 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 272942002635 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272942002636 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 272942002637 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 272942002638 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 272942002639 putative metal binding site [ion binding]; other site 272942002640 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 272942002641 HSP70 interaction site [polypeptide binding]; other site 272942002642 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272942002643 putative catalytic site [active] 272942002644 putative phosphate binding site [ion binding]; other site 272942002645 putative metal binding site [ion binding]; other site 272942002646 exopolyphosphatase; Region: exo_poly_only; TIGR03706 272942002647 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 272942002648 polyphosphate kinase; Provisional; Region: PRK05443 272942002649 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 272942002650 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 272942002651 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272942002652 putative domain interface [polypeptide binding]; other site 272942002653 putative active site [active] 272942002654 catalytic site [active] 272942002655 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272942002656 putative domain interface [polypeptide binding]; other site 272942002657 putative active site [active] 272942002658 catalytic site [active] 272942002659 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 272942002660 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272942002661 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272942002662 Domain of unknown function DUF20; Region: UPF0118; pfam01594 272942002663 transcriptional regulator; Provisional; Region: PRK10632 272942002664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942002665 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272942002666 putative effector binding pocket; other site 272942002667 dimerization interface [polypeptide binding]; other site 272942002668 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 272942002669 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 272942002670 putative active site [active] 272942002671 metal binding site [ion binding]; metal-binding site 272942002672 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 272942002673 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 272942002674 NAD(P) binding site [chemical binding]; other site 272942002675 LDH/MDH dimer interface [polypeptide binding]; other site 272942002676 substrate binding site [chemical binding]; other site 272942002677 cell division protein FtsW; Region: ftsW; TIGR02614 272942002678 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 272942002679 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 272942002680 active site 272942002681 homodimer interface [polypeptide binding]; other site 272942002682 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272942002683 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942002684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942002685 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942002686 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 272942002687 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272942002688 FAD binding domain; Region: FAD_binding_4; pfam01565 272942002689 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272942002690 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272942002691 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272942002692 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942002693 Cell division protein FtsQ; Region: FtsQ; pfam03799 272942002694 Cell division protein FtsA; Region: FtsA; smart00842 272942002695 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272942002696 Cell division protein FtsA; Region: FtsA; pfam14450 272942002697 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 272942002698 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 272942002699 nucleotide binding site [chemical binding]; other site 272942002700 SulA interaction site; other site 272942002701 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 272942002702 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 272942002703 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 272942002704 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272942002705 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272942002706 Walker A/P-loop; other site 272942002707 ATP binding site [chemical binding]; other site 272942002708 Q-loop/lid; other site 272942002709 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272942002710 ABC transporter signature motif; other site 272942002711 Walker B; other site 272942002712 D-loop; other site 272942002713 H-loop/switch region; other site 272942002714 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 272942002715 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942002716 FAD binding domain; Region: FAD_binding_4; pfam01565 272942002717 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 272942002718 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 272942002719 active site 2 [active] 272942002720 active site 1 [active] 272942002721 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 272942002722 propionate/acetate kinase; Provisional; Region: PRK12379 272942002723 Acetokinase family; Region: Acetate_kinase; cl17229 272942002724 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272942002725 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272942002726 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 272942002727 active site 272942002728 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 272942002729 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 272942002730 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 272942002731 metal ion-dependent adhesion site (MIDAS); other site 272942002732 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 272942002733 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 272942002734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272942002735 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 272942002736 HSP70 interaction site [polypeptide binding]; other site 272942002737 malate synthase G; Provisional; Region: PRK02999 272942002738 active site 272942002739 aminopeptidase N; Provisional; Region: pepN; PRK14015 272942002740 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 272942002741 Zn binding site [ion binding]; other site 272942002742 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272942002743 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272942002744 GatB domain; Region: GatB_Yqey; smart00845 272942002745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 272942002746 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 272942002747 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942002748 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942002749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002750 dimer interface [polypeptide binding]; other site 272942002751 conserved gate region; other site 272942002752 putative PBP binding loops; other site 272942002753 ABC-ATPase subunit interface; other site 272942002754 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942002755 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272942002756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002757 dimer interface [polypeptide binding]; other site 272942002758 conserved gate region; other site 272942002759 ABC-ATPase subunit interface; other site 272942002760 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272942002761 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942002762 Walker A/P-loop; other site 272942002763 ATP binding site [chemical binding]; other site 272942002764 Q-loop/lid; other site 272942002765 ABC transporter signature motif; other site 272942002766 Walker B; other site 272942002767 D-loop; other site 272942002768 H-loop/switch region; other site 272942002769 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002770 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272942002771 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942002772 Walker A/P-loop; other site 272942002773 ATP binding site [chemical binding]; other site 272942002774 Q-loop/lid; other site 272942002775 ABC transporter signature motif; other site 272942002776 Walker B; other site 272942002777 D-loop; other site 272942002778 H-loop/switch region; other site 272942002779 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 272942002780 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 272942002781 active site 272942002782 dimer interface [polypeptide binding]; other site 272942002783 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 272942002784 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272942002785 ATP binding site [chemical binding]; other site 272942002786 Mg++ binding site [ion binding]; other site 272942002787 motif III; other site 272942002788 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942002789 nucleotide binding region [chemical binding]; other site 272942002790 ATP-binding site [chemical binding]; other site 272942002791 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 272942002792 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 272942002793 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272942002794 active site 272942002795 HIGH motif; other site 272942002796 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942002797 KMSK motif region; other site 272942002798 tRNA binding surface [nucleotide binding]; other site 272942002799 DALR anticodon binding domain; Region: DALR_1; smart00836 272942002800 anticodon binding site; other site 272942002801 Sporulation related domain; Region: SPOR; pfam05036 272942002802 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 272942002803 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272942002804 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 272942002805 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 272942002806 enoyl-CoA hydratase; Validated; Region: PRK08139 272942002807 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942002808 substrate binding site [chemical binding]; other site 272942002809 oxyanion hole (OAH) forming residues; other site 272942002810 trimer interface [polypeptide binding]; other site 272942002811 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272942002812 CoenzymeA binding site [chemical binding]; other site 272942002813 subunit interaction site [polypeptide binding]; other site 272942002814 PHB binding site; other site 272942002815 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272942002816 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942002817 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942002818 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272942002819 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 272942002820 23S rRNA interface [nucleotide binding]; other site 272942002821 L3 interface [polypeptide binding]; other site 272942002822 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 272942002823 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942002824 Lysine efflux permease [General function prediction only]; Region: COG1279 272942002825 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 272942002826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942002827 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942002828 dimerization interface [polypeptide binding]; other site 272942002829 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272942002830 putative homodimer interface [polypeptide binding]; other site 272942002831 putative homotetramer interface [polypeptide binding]; other site 272942002832 putative metal binding site [ion binding]; other site 272942002833 putative homodimer-homodimer interface [polypeptide binding]; other site 272942002834 putative allosteric switch controlling residues; other site 272942002835 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 272942002836 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 272942002837 substrate binding site [chemical binding]; other site 272942002838 catalytic Zn binding site [ion binding]; other site 272942002839 NAD binding site [chemical binding]; other site 272942002840 structural Zn binding site [ion binding]; other site 272942002841 dimer interface [polypeptide binding]; other site 272942002842 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 272942002843 S-formylglutathione hydrolase; Region: PLN02442 272942002844 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 272942002845 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 272942002846 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272942002847 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 272942002848 NAD(P) binding site [chemical binding]; other site 272942002849 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942002850 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942002851 non-specific DNA binding site [nucleotide binding]; other site 272942002852 salt bridge; other site 272942002853 sequence-specific DNA binding site [nucleotide binding]; other site 272942002854 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272942002855 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 272942002856 active site 272942002857 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 272942002858 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272942002859 active site 272942002860 putative substrate binding pocket [chemical binding]; other site 272942002861 guanine deaminase; Provisional; Region: PRK09228 272942002862 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 272942002863 active site 272942002864 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272942002865 MgtE intracellular N domain; Region: MgtE_N; smart00924 272942002866 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 272942002867 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272942002868 Divalent cation transporter; Region: MgtE; cl00786 272942002869 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 272942002870 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 272942002871 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 272942002872 PhnA protein; Region: PhnA; pfam03831 272942002873 CHAP domain; Region: CHAP; cl17642 272942002874 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 272942002875 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272942002876 putative active site [active] 272942002877 metal binding site [ion binding]; metal-binding site 272942002878 homodimer binding site [polypeptide binding]; other site 272942002879 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942002880 transmembrane helices; other site 272942002881 TrkA-C domain; Region: TrkA_C; pfam02080 272942002882 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942002883 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272942002884 hypothetical protein; Validated; Region: PRK00110 272942002885 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942002886 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272942002887 Walker A/P-loop; other site 272942002888 ATP binding site [chemical binding]; other site 272942002889 Q-loop/lid; other site 272942002890 ABC transporter signature motif; other site 272942002891 Walker B; other site 272942002892 D-loop; other site 272942002893 H-loop/switch region; other site 272942002894 FtsX-like permease family; Region: FtsX; pfam02687 272942002895 NosL; Region: NosL; cl01769 272942002896 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942002897 EamA-like transporter family; Region: EamA; pfam00892 272942002898 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 272942002899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942002900 Walker A/P-loop; other site 272942002901 ATP binding site [chemical binding]; other site 272942002902 Q-loop/lid; other site 272942002903 ABC transporter signature motif; other site 272942002904 Walker B; other site 272942002905 D-loop; other site 272942002906 H-loop/switch region; other site 272942002907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942002908 dimer interface [polypeptide binding]; other site 272942002909 conserved gate region; other site 272942002910 putative PBP binding loops; other site 272942002911 ABC-ATPase subunit interface; other site 272942002912 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 272942002913 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 272942002914 transcriptional regulator BetI; Validated; Region: PRK00767 272942002915 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942002916 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 272942002917 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 272942002918 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942002919 NAD(P) binding site [chemical binding]; other site 272942002920 catalytic residues [active] 272942002921 choline dehydrogenase; Validated; Region: PRK02106 272942002922 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272942002923 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 272942002924 Staphylococcal nuclease homologues; Region: SNc; smart00318 272942002925 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272942002926 Catalytic site; other site 272942002927 Predicted membrane protein [Function unknown]; Region: COG4420 272942002928 Protein of unknown function (DUF465); Region: DUF465; cl01070 272942002929 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942002930 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942002931 non-specific DNA binding site [nucleotide binding]; other site 272942002932 salt bridge; other site 272942002933 sequence-specific DNA binding site [nucleotide binding]; other site 272942002934 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942002935 Domain of unknown function (DUF955); Region: DUF955; pfam06114 272942002936 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942002937 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 272942002938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942002939 putative substrate translocation pore; other site 272942002940 Protein of unknown function, DUF486; Region: DUF486; cl01236 272942002941 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 272942002942 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 272942002943 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 272942002944 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 272942002945 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942002946 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272942002947 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272942002948 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 272942002949 carboxyltransferase (CT) interaction site; other site 272942002950 biotinylation site [posttranslational modification]; other site 272942002951 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 272942002952 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 272942002953 active site 272942002954 substrate binding site [chemical binding]; other site 272942002955 coenzyme B12 binding site [chemical binding]; other site 272942002956 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272942002957 B12 binding site [chemical binding]; other site 272942002958 cobalt ligand [ion binding]; other site 272942002959 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 272942002960 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 272942002961 heme binding site [chemical binding]; other site 272942002962 ferroxidase pore; other site 272942002963 ferroxidase diiron center [ion binding]; other site 272942002964 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 272942002965 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 272942002966 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 272942002967 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 272942002968 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942002969 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 272942002970 amidase catalytic site [active] 272942002971 Zn binding residues [ion binding]; other site 272942002972 substrate binding site [chemical binding]; other site 272942002973 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 272942002974 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 272942002975 Putative phage tail protein; Region: Phage-tail_3; pfam13550 272942002976 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272942002977 NlpC/P60 family; Region: NLPC_P60; cl17555 272942002978 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 272942002979 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 272942002980 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 272942002981 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 272942002982 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272942002983 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 272942002984 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 272942002985 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272942002986 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 272942002987 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 272942002988 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 272942002989 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942002990 S-adenosylmethionine binding site [chemical binding]; other site 272942002991 DNA methylase; Region: N6_N4_Mtase; cl17433 272942002992 ParB-like nuclease domain; Region: ParBc; pfam02195 272942002993 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 272942002994 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942002995 putative DNA binding site [nucleotide binding]; other site 272942002996 putative Zn2+ binding site [ion binding]; other site 272942002997 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942002998 active site 272942002999 DNA binding site [nucleotide binding] 272942003000 Int/Topo IB signature motif; other site 272942003001 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 272942003002 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 272942003003 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942003004 ATP binding site [chemical binding]; other site 272942003005 putative Mg++ binding site [ion binding]; other site 272942003006 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 272942003007 nucleotide binding region [chemical binding]; other site 272942003008 ATP-binding site [chemical binding]; other site 272942003009 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942003010 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272942003011 S-adenosylmethionine binding site [chemical binding]; other site 272942003012 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 272942003013 GIY-YIG motif/motif A; other site 272942003014 putative active site [active] 272942003015 putative metal binding site [ion binding]; other site 272942003016 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 272942003017 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 272942003018 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942003019 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942003020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003021 AAA domain; Region: AAA_23; pfam13476 272942003022 Walker A/P-loop; other site 272942003023 ATP binding site [chemical binding]; other site 272942003024 AAA domain; Region: AAA_21; pfam13304 272942003025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003026 ABC transporter signature motif; other site 272942003027 Walker B; other site 272942003028 D-loop; other site 272942003029 H-loop/switch region; other site 272942003030 TIGR02646 family protein; Region: TIGR02646 272942003031 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272942003032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272942003033 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272942003034 Domain of unknown function (DUF303); Region: DUF303; pfam03629 272942003035 Phage-related protein, tail component [Function unknown]; Region: COG4733 272942003036 NlpC/P60 family; Region: NLPC_P60; cl17555 272942003037 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272942003038 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 272942003039 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 272942003040 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 272942003041 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 272942003042 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272942003043 Protein of unknown function (DUF935); Region: DUF935; pfam06074 272942003044 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 272942003045 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 272942003046 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 272942003047 catalytic residue [active] 272942003048 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942003049 Mor transcription activator family; Region: Mor; cl02360 272942003050 Homeodomain-like domain; Region: HTH_23; pfam13384 272942003051 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 272942003052 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272942003053 IHF - DNA interface [nucleotide binding]; other site 272942003054 IHF dimer interface [polypeptide binding]; other site 272942003055 Protein with unknown function (DUF469); Region: DUF469; cl01237 272942003056 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 272942003057 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 272942003058 AAA domain; Region: AAA_22; pfam13401 272942003059 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 272942003060 Integrase core domain; Region: rve; pfam00665 272942003061 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 272942003062 ParB-like nuclease domain; Region: ParB; smart00470 272942003063 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 272942003064 Predicted transcriptional regulator [Transcription]; Region: COG2932 272942003065 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272942003066 Catalytic site [active] 272942003067 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 272942003068 active site 272942003069 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942003070 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272942003071 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942003072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942003073 metal binding site [ion binding]; metal-binding site 272942003074 active site 272942003075 I-site; other site 272942003076 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942003077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003078 Walker A/P-loop; other site 272942003079 ATP binding site [chemical binding]; other site 272942003080 Q-loop/lid; other site 272942003081 ABC transporter signature motif; other site 272942003082 Walker B; other site 272942003083 D-loop; other site 272942003084 H-loop/switch region; other site 272942003085 TOBE domain; Region: TOBE_2; pfam08402 272942003086 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942003087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003088 dimer interface [polypeptide binding]; other site 272942003089 conserved gate region; other site 272942003090 putative PBP binding loops; other site 272942003091 ABC-ATPase subunit interface; other site 272942003092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003093 dimer interface [polypeptide binding]; other site 272942003094 putative PBP binding loops; other site 272942003095 ABC-ATPase subunit interface; other site 272942003096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942003097 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942003098 Response regulator receiver domain; Region: Response_reg; pfam00072 272942003099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942003100 active site 272942003101 phosphorylation site [posttranslational modification] 272942003102 intermolecular recognition site; other site 272942003103 dimerization interface [polypeptide binding]; other site 272942003104 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942003105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942003106 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 272942003107 dimer interface [polypeptide binding]; other site 272942003108 phosphorylation site [posttranslational modification] 272942003109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942003110 ATP binding site [chemical binding]; other site 272942003111 Mg2+ binding site [ion binding]; other site 272942003112 G-X-G motif; other site 272942003113 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 272942003114 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942003115 intersubunit interface [polypeptide binding]; other site 272942003116 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003117 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942003118 ABC-ATPase subunit interface; other site 272942003119 putative PBP binding regions; other site 272942003120 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942003121 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942003122 Walker A/P-loop; other site 272942003123 ATP binding site [chemical binding]; other site 272942003124 Q-loop/lid; other site 272942003125 ABC transporter signature motif; other site 272942003126 Walker B; other site 272942003127 D-loop; other site 272942003128 H-loop/switch region; other site 272942003129 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272942003130 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942003131 Walker A/P-loop; other site 272942003132 ATP binding site [chemical binding]; other site 272942003133 Q-loop/lid; other site 272942003134 ABC transporter signature motif; other site 272942003135 Walker B; other site 272942003136 D-loop; other site 272942003137 H-loop/switch region; other site 272942003138 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 272942003139 cobalt transport protein CbiM; Provisional; Region: PRK07331 272942003140 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 272942003141 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 272942003142 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 272942003143 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942003144 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272942003145 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942003146 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942003147 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942003148 Walker A/P-loop; other site 272942003149 ATP binding site [chemical binding]; other site 272942003150 Q-loop/lid; other site 272942003151 ABC transporter signature motif; other site 272942003152 Walker B; other site 272942003153 D-loop; other site 272942003154 H-loop/switch region; other site 272942003155 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272942003156 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942003157 ABC-ATPase subunit interface; other site 272942003158 dimer interface [polypeptide binding]; other site 272942003159 putative PBP binding regions; other site 272942003160 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272942003161 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942003162 intersubunit interface [polypeptide binding]; other site 272942003163 Helix-turn-helix domain; Region: HTH_18; pfam12833 272942003164 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 272942003165 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942003166 N-terminal plug; other site 272942003167 ligand-binding site [chemical binding]; other site 272942003168 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 272942003169 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 272942003170 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 272942003171 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 272942003172 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942003173 Walker A motif; other site 272942003174 ATP binding site [chemical binding]; other site 272942003175 Walker B motif; other site 272942003176 arginine finger; other site 272942003177 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 272942003178 Gas vesicle protein; Region: Gas_vesicle; pfam00741 272942003179 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942003180 Gas vesicle protein G; Region: GvpG; pfam05120 272942003181 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942003182 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942003183 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 272942003184 Gas vesicle protein K; Region: GvpK; pfam05121 272942003185 4-coumarate--CoA ligase, photoactive yellow protein activation family; Region: 4_coum_CoA_lig; TIGR02372 272942003186 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942003187 AMP binding site [chemical binding]; other site 272942003188 active site 272942003189 acyl-activating enzyme (AAE) consensus motif; other site 272942003190 CoA binding site [chemical binding]; other site 272942003191 photoactive yellow protein; Region: photo_yellow; TIGR02373 272942003192 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 272942003193 active sites [active] 272942003194 tetramer interface [polypeptide binding]; other site 272942003195 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 272942003196 PAS domain; Region: PAS_9; pfam13426 272942003197 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942003198 putative active site [active] 272942003199 heme pocket [chemical binding]; other site 272942003200 PAS domain; Region: PAS_9; pfam13426 272942003201 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942003202 putative active site [active] 272942003203 heme pocket [chemical binding]; other site 272942003204 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942003205 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942003206 dimer interface [polypeptide binding]; other site 272942003207 putative CheW interface [polypeptide binding]; other site 272942003208 Protein of unknown function, DUF393; Region: DUF393; pfam04134 272942003209 Bacterial SH3 domain; Region: SH3_3; pfam08239 272942003210 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 272942003211 putative ADP-binding pocket [chemical binding]; other site 272942003212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942003213 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 272942003214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942003215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942003216 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 272942003217 putative NAD(P) binding site [chemical binding]; other site 272942003218 active site 272942003219 putative substrate binding site [chemical binding]; other site 272942003220 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272942003221 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272942003222 Probable Catalytic site; other site 272942003223 metal-binding site 272942003224 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 272942003225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942003226 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 272942003227 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942003228 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942003229 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942003230 DNA binding residues [nucleotide binding] 272942003231 dimerization interface [polypeptide binding]; other site 272942003232 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272942003233 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 272942003234 peptide binding site [polypeptide binding]; other site 272942003235 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942003236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003237 dimer interface [polypeptide binding]; other site 272942003238 ABC-ATPase subunit interface; other site 272942003239 putative PBP binding loops; other site 272942003240 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942003241 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003242 dimer interface [polypeptide binding]; other site 272942003243 conserved gate region; other site 272942003244 putative PBP binding loops; other site 272942003245 ABC-ATPase subunit interface; other site 272942003246 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942003247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942003248 Walker A/P-loop; other site 272942003249 ATP binding site [chemical binding]; other site 272942003250 Q-loop/lid; other site 272942003251 ABC transporter signature motif; other site 272942003252 Walker B; other site 272942003253 D-loop; other site 272942003254 H-loop/switch region; other site 272942003255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942003256 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942003257 Walker A/P-loop; other site 272942003258 ATP binding site [chemical binding]; other site 272942003259 Q-loop/lid; other site 272942003260 ABC transporter signature motif; other site 272942003261 Walker B; other site 272942003262 D-loop; other site 272942003263 H-loop/switch region; other site 272942003264 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 272942003265 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272942003266 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272942003267 interface (dimer of trimers) [polypeptide binding]; other site 272942003268 Substrate-binding/catalytic site; other site 272942003269 Zn-binding sites [ion binding]; other site 272942003270 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 272942003271 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 272942003272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003273 DNA-binding site [nucleotide binding]; DNA binding site 272942003274 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942003275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003276 homodimer interface [polypeptide binding]; other site 272942003277 catalytic residue [active] 272942003278 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942003279 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 272942003280 putative metal binding site [ion binding]; other site 272942003281 HI0933-like protein; Region: HI0933_like; pfam03486 272942003282 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272942003283 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272942003284 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 272942003285 non-specific DNA binding site [nucleotide binding]; other site 272942003286 salt bridge; other site 272942003287 sequence-specific DNA binding site [nucleotide binding]; other site 272942003288 HipA N-terminal domain; Region: Couple_hipA; cl11853 272942003289 HipA-like N-terminal domain; Region: HipA_N; pfam07805 272942003290 HipA-like C-terminal domain; Region: HipA_C; pfam07804 272942003291 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272942003292 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272942003293 Walker A motif; other site 272942003294 ATP binding site [chemical binding]; other site 272942003295 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942003296 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 272942003297 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 272942003298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942003299 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942003300 PAS domain; Region: PAS_9; pfam13426 272942003301 putative active site [active] 272942003302 heme pocket [chemical binding]; other site 272942003303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942003304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942003305 metal binding site [ion binding]; metal-binding site 272942003306 active site 272942003307 I-site; other site 272942003308 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942003309 Hemin uptake protein hemP; Region: hemP; pfam10636 272942003310 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 272942003311 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942003312 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942003313 FeS/SAM binding site; other site 272942003314 TRAM domain; Region: TRAM; pfam01938 272942003315 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942003316 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942003317 ligand binding site [chemical binding]; other site 272942003318 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 272942003319 PhoH-like protein; Region: PhoH; pfam02562 272942003320 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 272942003321 FOG: CBS domain [General function prediction only]; Region: COG0517 272942003322 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272942003323 Transporter associated domain; Region: CorC_HlyC; smart01091 272942003324 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 272942003325 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 272942003326 putative active site [active] 272942003327 catalytic triad [active] 272942003328 putative dimer interface [polypeptide binding]; other site 272942003329 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272942003330 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272942003331 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272942003332 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272942003333 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 272942003334 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 272942003335 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 272942003336 hinge; other site 272942003337 active site 272942003338 cytidylate kinase; Provisional; Region: cmk; PRK00023 272942003339 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 272942003340 CMP-binding site; other site 272942003341 The sites determining sugar specificity; other site 272942003342 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 272942003343 dimer interface [polypeptide binding]; other site 272942003344 FMN binding site [chemical binding]; other site 272942003345 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 272942003346 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 272942003347 RNA binding site [nucleotide binding]; other site 272942003348 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 272942003349 RNA binding site [nucleotide binding]; other site 272942003350 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 272942003351 RNA binding site [nucleotide binding]; other site 272942003352 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 272942003353 RNA binding site [nucleotide binding]; other site 272942003354 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 272942003355 RNA binding site [nucleotide binding]; other site 272942003356 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 272942003357 RNA binding site [nucleotide binding]; other site 272942003358 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272942003359 IHF dimer interface [polypeptide binding]; other site 272942003360 IHF - DNA interface [nucleotide binding]; other site 272942003361 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 272942003362 active site 272942003363 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 272942003364 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 272942003365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003366 catalytic residue [active] 272942003367 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942003368 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942003369 DNA binding residues [nucleotide binding] 272942003370 dimerization interface [polypeptide binding]; other site 272942003371 Predicted transcriptional regulators [Transcription]; Region: COG1510 272942003372 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942003373 putative Zn2+ binding site [ion binding]; other site 272942003374 putative DNA binding site [nucleotide binding]; other site 272942003375 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272942003376 active site 272942003377 catalytic residues [active] 272942003378 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 272942003379 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 272942003380 metal binding site [ion binding]; metal-binding site 272942003381 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 272942003382 metal binding site 2 [ion binding]; metal-binding site 272942003383 putative DNA binding helix; other site 272942003384 metal binding site 1 [ion binding]; metal-binding site 272942003385 dimer interface [polypeptide binding]; other site 272942003386 structural Zn2+ binding site [ion binding]; other site 272942003387 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 272942003388 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 272942003389 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003390 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 272942003391 ABC-ATPase subunit interface; other site 272942003392 dimer interface [polypeptide binding]; other site 272942003393 putative PBP binding regions; other site 272942003394 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272942003395 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272942003396 putative substrate binding site [chemical binding]; other site 272942003397 putative ATP binding site [chemical binding]; other site 272942003398 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 272942003399 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 272942003400 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942003401 active site 272942003402 HIGH motif; other site 272942003403 nucleotide binding site [chemical binding]; other site 272942003404 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942003405 active site 272942003406 KMSKS motif; other site 272942003407 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 272942003408 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942003409 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 272942003410 lipoyl attachment site [posttranslational modification]; other site 272942003411 glycine dehydrogenase; Provisional; Region: PRK05367 272942003412 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 272942003413 tetramer interface [polypeptide binding]; other site 272942003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003415 catalytic residue [active] 272942003416 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 272942003417 tetramer interface [polypeptide binding]; other site 272942003418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003419 catalytic residue [active] 272942003420 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 272942003421 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 272942003422 dimer interface [polypeptide binding]; other site 272942003423 active site 272942003424 CoA binding pocket [chemical binding]; other site 272942003425 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272942003426 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 272942003427 dimerization interface [polypeptide binding]; other site 272942003428 ligand binding site [chemical binding]; other site 272942003429 NADP binding site [chemical binding]; other site 272942003430 catalytic site [active] 272942003431 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 272942003432 dimer interface [polypeptide binding]; other site 272942003433 putative tRNA-binding site [nucleotide binding]; other site 272942003434 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 272942003435 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 272942003436 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 272942003437 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 272942003438 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272942003439 Tetramer interface [polypeptide binding]; other site 272942003440 active site 272942003441 FMN-binding site [chemical binding]; other site 272942003442 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 272942003443 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 272942003444 metal binding site [ion binding]; metal-binding site 272942003445 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 272942003446 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272942003447 substrate binding site [chemical binding]; other site 272942003448 glutamase interaction surface [polypeptide binding]; other site 272942003449 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 272942003450 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272942003451 catalytic residues [active] 272942003452 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 272942003453 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272942003454 Ligand Binding Site [chemical binding]; other site 272942003455 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 272942003456 Low-spin heme binding site [chemical binding]; other site 272942003457 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 272942003458 Putative water exit pathway; other site 272942003459 Binuclear center (active site) [active] 272942003460 Putative proton exit pathway; other site 272942003461 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 272942003462 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 272942003463 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 272942003464 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 272942003465 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 272942003466 Cytochrome c; Region: Cytochrom_C; pfam00034 272942003467 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 272942003468 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942003469 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 272942003470 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272942003471 FixH; Region: FixH; pfam05751 272942003472 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 272942003473 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 272942003474 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272942003475 metal-binding site [ion binding] 272942003476 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942003477 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272942003478 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 272942003479 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272942003480 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 272942003481 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272942003482 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942003483 motif II; other site 272942003484 Uncharacterized conserved protein [Function unknown]; Region: COG2127 272942003485 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 272942003486 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942003487 S-adenosylmethionine binding site [chemical binding]; other site 272942003488 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272942003489 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 272942003490 ATP binding site [chemical binding]; other site 272942003491 putative Mg++ binding site [ion binding]; other site 272942003492 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942003493 nucleotide binding region [chemical binding]; other site 272942003494 ATP-binding site [chemical binding]; other site 272942003495 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 272942003496 RNA binding site [nucleotide binding]; other site 272942003497 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 272942003498 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 272942003499 substrate binding site [chemical binding]; other site 272942003500 active site 272942003501 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272942003502 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 272942003503 domain interfaces; other site 272942003504 active site 272942003505 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942003506 FAD binding domain; Region: FAD_binding_4; pfam01565 272942003507 sugar efflux transporter; Region: 2A0120; TIGR00899 272942003508 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 272942003509 active site 272942003510 catalytic triad [active] 272942003511 oxyanion hole [active] 272942003512 switch loop; other site 272942003513 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 272942003514 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272942003515 Walker A/P-loop; other site 272942003516 ATP binding site [chemical binding]; other site 272942003517 Q-loop/lid; other site 272942003518 ABC transporter signature motif; other site 272942003519 Walker B; other site 272942003520 D-loop; other site 272942003521 H-loop/switch region; other site 272942003522 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272942003523 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272942003524 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272942003525 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942003526 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942003527 catalytic residue [active] 272942003528 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 272942003529 metal-binding site [ion binding] 272942003530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272942003531 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942003532 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 272942003533 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 272942003534 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272942003535 putative active site [active] 272942003536 oxyanion strand; other site 272942003537 catalytic triad [active] 272942003538 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272942003539 putative active site pocket [active] 272942003540 4-fold oligomerization interface [polypeptide binding]; other site 272942003541 metal binding residues [ion binding]; metal-binding site 272942003542 3-fold/trimer interface [polypeptide binding]; other site 272942003543 CsbD-like; Region: CsbD; cl17424 272942003544 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272942003545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942003546 dimer interface [polypeptide binding]; other site 272942003547 putative CheW interface [polypeptide binding]; other site 272942003548 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 272942003549 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 272942003550 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 272942003551 Walker A/P-loop; other site 272942003552 ATP binding site [chemical binding]; other site 272942003553 Q-loop/lid; other site 272942003554 ABC transporter signature motif; other site 272942003555 Walker B; other site 272942003556 D-loop; other site 272942003557 H-loop/switch region; other site 272942003558 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 272942003559 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 272942003560 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272942003561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003562 dimer interface [polypeptide binding]; other site 272942003563 conserved gate region; other site 272942003564 putative PBP binding loops; other site 272942003565 ABC-ATPase subunit interface; other site 272942003566 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272942003567 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 272942003568 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 272942003569 trimer interface [polypeptide binding]; other site 272942003570 active site 272942003571 substrate binding site [chemical binding]; other site 272942003572 CoA binding site [chemical binding]; other site 272942003573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003574 DNA-binding site [nucleotide binding]; DNA binding site 272942003575 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 272942003576 UTRA domain; Region: UTRA; pfam07702 272942003577 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 272942003578 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 272942003579 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 272942003580 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 272942003581 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 272942003582 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942003583 Walker A/P-loop; other site 272942003584 ATP binding site [chemical binding]; other site 272942003585 Q-loop/lid; other site 272942003586 ABC transporter signature motif; other site 272942003587 Walker B; other site 272942003588 D-loop; other site 272942003589 H-loop/switch region; other site 272942003590 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 272942003591 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003592 Walker A/P-loop; other site 272942003593 ATP binding site [chemical binding]; other site 272942003594 Q-loop/lid; other site 272942003595 ABC transporter signature motif; other site 272942003596 Walker B; other site 272942003597 D-loop; other site 272942003598 H-loop/switch region; other site 272942003599 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 272942003600 active site 272942003601 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 272942003602 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 272942003603 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 272942003604 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 272942003605 active site 272942003606 pyruvate carboxylase; Reviewed; Region: PRK12999 272942003607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942003608 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942003609 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272942003610 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 272942003611 active site 272942003612 catalytic residues [active] 272942003613 metal binding site [ion binding]; metal-binding site 272942003614 homodimer binding site [polypeptide binding]; other site 272942003615 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 272942003616 carboxyltransferase (CT) interaction site; other site 272942003617 biotinylation site [posttranslational modification]; other site 272942003618 Sporulation related domain; Region: SPOR; pfam05036 272942003619 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942003620 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272942003621 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 272942003622 motif 1; other site 272942003623 dimer interface [polypeptide binding]; other site 272942003624 active site 272942003625 motif 2; other site 272942003626 motif 3; other site 272942003627 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272942003628 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272942003629 pyruvate phosphate dikinase; Provisional; Region: PRK09279 272942003630 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272942003631 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272942003632 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272942003633 Dihydroneopterin aldolase; Region: FolB; smart00905 272942003634 active site 272942003635 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 272942003636 dihydropteroate synthase; Region: DHPS; TIGR01496 272942003637 substrate binding pocket [chemical binding]; other site 272942003638 dimer interface [polypeptide binding]; other site 272942003639 inhibitor binding site; inhibition site 272942003640 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 272942003641 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 272942003642 active site 272942003643 substrate binding site [chemical binding]; other site 272942003644 metal binding site [ion binding]; metal-binding site 272942003645 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272942003646 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 272942003647 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272942003648 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942003649 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942003650 putative DNA binding site [nucleotide binding]; other site 272942003651 putative Zn2+ binding site [ion binding]; other site 272942003652 AsnC family; Region: AsnC_trans_reg; pfam01037 272942003653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942003654 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942003655 putative DNA binding site [nucleotide binding]; other site 272942003656 putative Zn2+ binding site [ion binding]; other site 272942003657 AsnC family; Region: AsnC_trans_reg; pfam01037 272942003658 UreD urease accessory protein; Region: UreD; pfam01774 272942003659 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 272942003660 alpha-gamma subunit interface [polypeptide binding]; other site 272942003661 beta-gamma subunit interface [polypeptide binding]; other site 272942003662 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 272942003663 gamma-beta subunit interface [polypeptide binding]; other site 272942003664 alpha-beta subunit interface [polypeptide binding]; other site 272942003665 urease subunit alpha; Reviewed; Region: ureC; PRK13207 272942003666 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 272942003667 subunit interactions [polypeptide binding]; other site 272942003668 active site 272942003669 flap region; other site 272942003670 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 272942003671 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 272942003672 dimer interface [polypeptide binding]; other site 272942003673 catalytic residues [active] 272942003674 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272942003675 UreF; Region: UreF; pfam01730 272942003676 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942003677 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272942003678 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 272942003679 putative ligand binding site [chemical binding]; other site 272942003680 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 272942003681 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942003682 TM-ABC transporter signature motif; other site 272942003683 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 272942003684 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 272942003685 TM-ABC transporter signature motif; other site 272942003686 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 272942003687 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 272942003688 Walker A/P-loop; other site 272942003689 ATP binding site [chemical binding]; other site 272942003690 Q-loop/lid; other site 272942003691 ABC transporter signature motif; other site 272942003692 Walker B; other site 272942003693 D-loop; other site 272942003694 H-loop/switch region; other site 272942003695 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 272942003696 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 272942003697 Walker A/P-loop; other site 272942003698 ATP binding site [chemical binding]; other site 272942003699 Q-loop/lid; other site 272942003700 ABC transporter signature motif; other site 272942003701 Walker B; other site 272942003702 D-loop; other site 272942003703 H-loop/switch region; other site 272942003704 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 272942003705 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 272942003706 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 272942003707 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942003708 motif II; other site 272942003709 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942003710 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003711 DNA-binding site [nucleotide binding]; DNA binding site 272942003712 FCD domain; Region: FCD; cl11656 272942003713 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272942003714 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 272942003715 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272942003716 DXD motif; other site 272942003717 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272942003718 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 272942003719 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272942003720 catalytic site [active] 272942003721 subunit interface [polypeptide binding]; other site 272942003722 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 272942003723 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272942003724 active site 272942003725 metal binding site [ion binding]; metal-binding site 272942003726 Cytochrome c; Region: Cytochrom_C; cl11414 272942003727 lipoate-protein ligase B; Provisional; Region: PRK14341 272942003728 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 272942003729 Hint domain; Region: Hint_2; pfam13403 272942003730 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942003731 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 272942003732 Walker A/P-loop; other site 272942003733 ATP binding site [chemical binding]; other site 272942003734 Q-loop/lid; other site 272942003735 ABC transporter signature motif; other site 272942003736 Walker B; other site 272942003737 D-loop; other site 272942003738 H-loop/switch region; other site 272942003739 TOBE domain; Region: TOBE_2; pfam08402 272942003740 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942003741 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942003742 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942003743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003744 dimer interface [polypeptide binding]; other site 272942003745 conserved gate region; other site 272942003746 putative PBP binding loops; other site 272942003747 ABC-ATPase subunit interface; other site 272942003748 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942003749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003750 dimer interface [polypeptide binding]; other site 272942003751 conserved gate region; other site 272942003752 putative PBP binding loops; other site 272942003753 ABC-ATPase subunit interface; other site 272942003754 Predicted permeases [General function prediction only]; Region: COG0679 272942003755 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 272942003756 putative hydrolase; Provisional; Region: PRK02113 272942003757 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272942003758 active site 272942003759 DNA polymerase III subunit delta'; Validated; Region: PRK07471 272942003760 DNA polymerase III subunit delta'; Validated; Region: PRK08485 272942003761 thymidylate kinase; Validated; Region: tmk; PRK00698 272942003762 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 272942003763 TMP-binding site; other site 272942003764 ATP-binding site [chemical binding]; other site 272942003765 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272942003766 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 272942003767 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272942003768 Sporulation related domain; Region: SPOR; pfam05036 272942003769 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942003770 active site 272942003771 Int/Topo IB signature motif; other site 272942003772 DNA binding site [nucleotide binding] 272942003773 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 272942003774 DNA methylase; Region: N6_N4_Mtase; pfam01555 272942003775 DNA methylase; Region: N6_N4_Mtase; pfam01555 272942003776 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 272942003777 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 272942003778 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942003779 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272942003780 catalytic residues [active] 272942003781 catalytic nucleophile [active] 272942003782 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272942003783 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 272942003784 putative active site [active] 272942003785 putative NTP binding site [chemical binding]; other site 272942003786 putative nucleic acid binding site [nucleotide binding]; other site 272942003787 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942003788 non-specific DNA binding site [nucleotide binding]; other site 272942003789 salt bridge; other site 272942003790 sequence-specific DNA binding site [nucleotide binding]; other site 272942003791 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 272942003792 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 272942003793 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 272942003794 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 272942003795 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272942003796 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272942003797 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272942003798 putative active site [active] 272942003799 putative NTP binding site [chemical binding]; other site 272942003800 putative nucleic acid binding site [nucleotide binding]; other site 272942003801 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 272942003802 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 272942003803 LabA_like proteins; Region: LabA_like; cd06167 272942003804 putative metal binding site [ion binding]; other site 272942003805 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272942003806 active site 272942003807 catalytic site [active] 272942003808 substrate binding site [chemical binding]; other site 272942003809 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 272942003810 Predicted transcriptional regulator [Transcription]; Region: COG2378 272942003811 WYL domain; Region: WYL; pfam13280 272942003812 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272942003813 Walker A motif; other site 272942003814 ATP binding site [chemical binding]; other site 272942003815 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 272942003816 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 272942003817 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272942003818 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272942003819 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942003820 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 272942003821 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942003822 ligand binding site [chemical binding]; other site 272942003823 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 272942003824 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272942003825 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942003826 ATP binding site [chemical binding]; other site 272942003827 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942003828 nucleotide binding region [chemical binding]; other site 272942003829 ATP-binding site [chemical binding]; other site 272942003830 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272942003831 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942003832 nucleotide binding region [chemical binding]; other site 272942003833 ATP-binding site [chemical binding]; other site 272942003834 WYL domain; Region: WYL; pfam13280 272942003835 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 272942003836 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 272942003837 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 272942003838 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 272942003839 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 272942003840 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 272942003841 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 272942003842 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942003843 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 272942003844 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272942003845 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 272942003846 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 272942003847 Protein of unknown function DUF262; Region: DUF262; pfam03235 272942003848 Protein of unknown function DUF262; Region: DUF262; pfam03235 272942003849 Uncharacterized conserved protein [Function unknown]; Region: COG4938 272942003850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003851 Walker A/P-loop; other site 272942003852 ATP binding site [chemical binding]; other site 272942003853 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 272942003854 Pirin-related protein [General function prediction only]; Region: COG1741 272942003855 Pirin; Region: Pirin; pfam02678 272942003856 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003857 Predicted membrane protein [Function unknown]; Region: COG3174 272942003858 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 272942003859 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 272942003860 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942003861 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 272942003862 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 272942003863 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 272942003864 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 272942003865 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 272942003866 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942003867 ATP binding site [chemical binding]; other site 272942003868 putative Mg++ binding site [ion binding]; other site 272942003869 HsdM N-terminal domain; Region: HsdM_N; pfam12161 272942003870 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942003871 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942003872 S-adenosylmethionine binding site [chemical binding]; other site 272942003873 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 272942003874 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942003875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942003876 Walker A/P-loop; other site 272942003877 ATP binding site [chemical binding]; other site 272942003878 Uncharacterized conserved protein [Function unknown]; Region: COG4938 272942003879 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 272942003880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 272942003881 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 272942003882 Transposase; Region: HTH_Tnp_1; cl17663 272942003883 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272942003884 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942003885 Walker A motif; other site 272942003886 ATP binding site [chemical binding]; other site 272942003887 arginine finger; other site 272942003888 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942003889 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 272942003890 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 272942003891 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 272942003892 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 272942003893 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 272942003894 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 272942003895 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 272942003896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942003897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942003898 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942003899 EamA-like transporter family; Region: EamA; pfam00892 272942003900 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942003901 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 272942003902 intersubunit interface [polypeptide binding]; other site 272942003903 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003904 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 272942003905 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 272942003906 Pirin-related protein [General function prediction only]; Region: COG1741 272942003907 Pirin; Region: Pirin; pfam02678 272942003908 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003909 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 272942003910 active site 272942003911 catalytic site [active] 272942003912 substrate binding site [chemical binding]; other site 272942003913 Pirin-related protein [General function prediction only]; Region: COG1741 272942003914 Pirin; Region: Pirin; pfam02678 272942003915 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003916 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942003917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942003918 active site 272942003919 phosphorylation site [posttranslational modification] 272942003920 intermolecular recognition site; other site 272942003921 dimerization interface [polypeptide binding]; other site 272942003922 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272942003923 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 272942003924 putative binding surface; other site 272942003925 active site 272942003926 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272942003927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942003928 ATP binding site [chemical binding]; other site 272942003929 Mg2+ binding site [ion binding]; other site 272942003930 G-X-G motif; other site 272942003931 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 272942003932 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272942003933 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272942003934 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942003935 dimerization interface [polypeptide binding]; other site 272942003936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942003937 dimer interface [polypeptide binding]; other site 272942003938 putative CheW interface [polypeptide binding]; other site 272942003939 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272942003940 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272942003941 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 272942003942 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272942003943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942003944 active site 272942003945 phosphorylation site [posttranslational modification] 272942003946 intermolecular recognition site; other site 272942003947 dimerization interface [polypeptide binding]; other site 272942003948 CheB methylesterase; Region: CheB_methylest; pfam01339 272942003949 FecR protein; Region: FecR; pfam04773 272942003950 CHASE2 domain; Region: CHASE2; pfam05226 272942003951 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 272942003952 cyclase homology domain; Region: CHD; cd07302 272942003953 nucleotidyl binding site; other site 272942003954 metal binding site [ion binding]; metal-binding site 272942003955 dimer interface [polypeptide binding]; other site 272942003956 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942003957 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942003958 ligand binding site [chemical binding]; other site 272942003959 flexible hinge region; other site 272942003960 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 272942003961 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003962 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003963 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003964 2-isopropylmalate synthase; Validated; Region: PRK00915 272942003965 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 272942003966 active site 272942003967 catalytic residues [active] 272942003968 metal binding site [ion binding]; metal-binding site 272942003969 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 272942003970 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942003971 dimer interface [polypeptide binding]; other site 272942003972 phosphorylation site [posttranslational modification] 272942003973 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942003974 ATP binding site [chemical binding]; other site 272942003975 Mg2+ binding site [ion binding]; other site 272942003976 G-X-G motif; other site 272942003977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 272942003978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 272942003979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 272942003980 NAD synthetase; Provisional; Region: PRK13981 272942003981 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 272942003982 multimer interface [polypeptide binding]; other site 272942003983 active site 272942003984 catalytic triad [active] 272942003985 protein interface 1 [polypeptide binding]; other site 272942003986 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 272942003987 homodimer interface [polypeptide binding]; other site 272942003988 NAD binding pocket [chemical binding]; other site 272942003989 ATP binding pocket [chemical binding]; other site 272942003990 Mg binding site [ion binding]; other site 272942003991 active-site loop [active] 272942003992 Transposase IS200 like; Region: Y1_Tnp; cl00848 272942003993 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 272942003994 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942003995 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 272942003996 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942003997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942003998 dimer interface [polypeptide binding]; other site 272942003999 conserved gate region; other site 272942004000 putative PBP binding loops; other site 272942004001 ABC-ATPase subunit interface; other site 272942004002 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942004003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942004004 dimer interface [polypeptide binding]; other site 272942004005 conserved gate region; other site 272942004006 putative PBP binding loops; other site 272942004007 ABC-ATPase subunit interface; other site 272942004008 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942004009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004010 Walker A/P-loop; other site 272942004011 ATP binding site [chemical binding]; other site 272942004012 Q-loop/lid; other site 272942004013 ABC transporter signature motif; other site 272942004014 Walker B; other site 272942004015 D-loop; other site 272942004016 H-loop/switch region; other site 272942004017 TOBE domain; Region: TOBE_2; pfam08402 272942004018 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272942004019 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272942004020 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272942004021 putative active site [active] 272942004022 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272942004023 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 272942004024 DctM-like transporters; Region: DctM; pfam06808 272942004025 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272942004026 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942004027 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272942004028 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942004029 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 272942004030 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 272942004031 NAD(P) binding site [chemical binding]; other site 272942004032 catalytic residues [active] 272942004033 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272942004034 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 272942004035 putative active site [active] 272942004036 metal binding site [ion binding]; metal-binding site 272942004037 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942004038 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942004039 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 272942004040 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 272942004041 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272942004042 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 272942004043 excinuclease ABC subunit B; Provisional; Region: PRK05298 272942004044 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942004045 ATP binding site [chemical binding]; other site 272942004046 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942004047 nucleotide binding region [chemical binding]; other site 272942004048 ATP-binding site [chemical binding]; other site 272942004049 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272942004050 UvrB/uvrC motif; Region: UVR; pfam02151 272942004051 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 272942004052 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272942004053 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272942004054 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272942004055 putative active site [active] 272942004056 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942004057 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942004058 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942004059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004060 Walker A/P-loop; other site 272942004061 ATP binding site [chemical binding]; other site 272942004062 Q-loop/lid; other site 272942004063 ABC transporter signature motif; other site 272942004064 Walker B; other site 272942004065 D-loop; other site 272942004066 H-loop/switch region; other site 272942004067 TOBE domain; Region: TOBE_2; pfam08402 272942004068 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942004069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942004070 putative PBP binding loops; other site 272942004071 ABC-ATPase subunit interface; other site 272942004072 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942004073 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942004074 dimer interface [polypeptide binding]; other site 272942004075 conserved gate region; other site 272942004076 putative PBP binding loops; other site 272942004077 ABC-ATPase subunit interface; other site 272942004078 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 272942004079 homodimer interface [polypeptide binding]; other site 272942004080 homotetramer interface [polypeptide binding]; other site 272942004081 active site pocket [active] 272942004082 cleavage site 272942004083 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 272942004084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004085 active site 272942004086 phosphorylation site [posttranslational modification] 272942004087 intermolecular recognition site; other site 272942004088 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 272942004089 DNA binding residues [nucleotide binding] 272942004090 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 272942004091 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272942004092 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272942004093 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272942004094 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272942004095 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272942004096 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 272942004097 dimer interface [polypeptide binding]; other site 272942004098 Trp docking motif [polypeptide binding]; other site 272942004099 active site 272942004100 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272942004101 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 272942004102 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 272942004103 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 272942004104 active site residue [active] 272942004105 Histidine kinase; Region: HisKA_3; pfam07730 272942004106 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942004107 ATP binding site [chemical binding]; other site 272942004108 Mg2+ binding site [ion binding]; other site 272942004109 G-X-G motif; other site 272942004110 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272942004111 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272942004112 conserved cys residue [active] 272942004113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942004114 NMT1/THI5 like; Region: NMT1; pfam09084 272942004115 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942004116 substrate binding pocket [chemical binding]; other site 272942004117 membrane-bound complex binding site; other site 272942004118 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942004119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942004120 dimer interface [polypeptide binding]; other site 272942004121 conserved gate region; other site 272942004122 putative PBP binding loops; other site 272942004123 ABC-ATPase subunit interface; other site 272942004124 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942004125 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272942004126 Walker A/P-loop; other site 272942004127 ATP binding site [chemical binding]; other site 272942004128 Q-loop/lid; other site 272942004129 ABC transporter signature motif; other site 272942004130 Walker B; other site 272942004131 D-loop; other site 272942004132 H-loop/switch region; other site 272942004133 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 272942004134 catalytic residue [active] 272942004135 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 272942004136 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 272942004137 Protein kinase domain; Region: Pkinase; pfam00069 272942004138 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272942004139 active site 272942004140 ATP binding site [chemical binding]; other site 272942004141 substrate binding site [chemical binding]; other site 272942004142 activation loop (A-loop); other site 272942004143 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 272942004144 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942004145 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 272942004146 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 272942004147 tandem repeat interface [polypeptide binding]; other site 272942004148 oligomer interface [polypeptide binding]; other site 272942004149 active site residues [active] 272942004150 flavodoxin FldA; Validated; Region: PRK09267 272942004151 Hemin uptake protein hemP; Region: hemP; pfam10636 272942004152 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 272942004153 diiron binding motif [ion binding]; other site 272942004154 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942004155 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942004156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004157 Walker A/P-loop; other site 272942004158 ATP binding site [chemical binding]; other site 272942004159 Q-loop/lid; other site 272942004160 ABC transporter signature motif; other site 272942004161 Walker B; other site 272942004162 D-loop; other site 272942004163 H-loop/switch region; other site 272942004164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004165 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272942004166 Walker A/P-loop; other site 272942004167 ATP binding site [chemical binding]; other site 272942004168 Q-loop/lid; other site 272942004169 ABC transporter signature motif; other site 272942004170 Walker B; other site 272942004171 D-loop; other site 272942004172 H-loop/switch region; other site 272942004173 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272942004174 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942004175 N-terminal plug; other site 272942004176 ligand-binding site [chemical binding]; other site 272942004177 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 272942004178 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 272942004179 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272942004180 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272942004181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942004182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942004183 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 272942004184 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942004185 N-terminal plug; other site 272942004186 ligand-binding site [chemical binding]; other site 272942004187 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 272942004188 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942004189 siderophore binding site; other site 272942004190 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942004191 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942004192 putative PBP binding regions; other site 272942004193 ABC-ATPase subunit interface; other site 272942004194 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942004195 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942004196 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942004197 Walker A/P-loop; other site 272942004198 ATP binding site [chemical binding]; other site 272942004199 Q-loop/lid; other site 272942004200 ABC transporter signature motif; other site 272942004201 Walker B; other site 272942004202 D-loop; other site 272942004203 H-loop/switch region; other site 272942004204 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 272942004205 FAD binding pocket [chemical binding]; other site 272942004206 FAD binding motif [chemical binding]; other site 272942004207 phosphate binding motif [ion binding]; other site 272942004208 NAD binding pocket [chemical binding]; other site 272942004209 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272942004210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004211 Walker A/P-loop; other site 272942004212 ATP binding site [chemical binding]; other site 272942004213 Q-loop/lid; other site 272942004214 ABC transporter signature motif; other site 272942004215 Walker B; other site 272942004216 D-loop; other site 272942004217 H-loop/switch region; other site 272942004218 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942004219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004220 Walker A/P-loop; other site 272942004221 ATP binding site [chemical binding]; other site 272942004222 Q-loop/lid; other site 272942004223 ABC transporter signature motif; other site 272942004224 Walker B; other site 272942004225 D-loop; other site 272942004226 H-loop/switch region; other site 272942004227 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942004228 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942004229 Walker A/P-loop; other site 272942004230 ATP binding site [chemical binding]; other site 272942004231 Q-loop/lid; other site 272942004232 ABC transporter signature motif; other site 272942004233 Walker B; other site 272942004234 D-loop; other site 272942004235 H-loop/switch region; other site 272942004236 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942004237 ABC-ATPase subunit interface; other site 272942004238 dimer interface [polypeptide binding]; other site 272942004239 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942004240 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942004241 ABC-ATPase subunit interface; other site 272942004242 dimer interface [polypeptide binding]; other site 272942004243 putative PBP binding regions; other site 272942004244 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 272942004245 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942004246 intersubunit interface [polypeptide binding]; other site 272942004247 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 272942004248 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272942004249 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942004250 N-terminal plug; other site 272942004251 ligand-binding site [chemical binding]; other site 272942004252 hypothetical protein; Validated; Region: PRK09104 272942004253 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 272942004254 metal binding site [ion binding]; metal-binding site 272942004255 putative dimer interface [polypeptide binding]; other site 272942004256 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 272942004257 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272942004258 substrate-cofactor binding pocket; other site 272942004259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942004260 catalytic residue [active] 272942004261 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 272942004262 Helix-turn-helix domain; Region: HTH_25; pfam13413 272942004263 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 272942004264 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272942004265 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272942004266 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272942004267 seryl-tRNA synthetase; Provisional; Region: PRK05431 272942004268 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 272942004269 dimer interface [polypeptide binding]; other site 272942004270 active site 272942004271 motif 1; other site 272942004272 motif 2; other site 272942004273 motif 3; other site 272942004274 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942004275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942004276 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272942004277 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942004278 dimerization interface [polypeptide binding]; other site 272942004279 putative DNA binding site [nucleotide binding]; other site 272942004280 putative Zn2+ binding site [ion binding]; other site 272942004281 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272942004282 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 272942004283 Cl binding site [ion binding]; other site 272942004284 oligomer interface [polypeptide binding]; other site 272942004285 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 272942004286 catalytic motif [active] 272942004287 Catalytic residue [active] 272942004288 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 272942004289 HTH domain; Region: HTH_11; pfam08279 272942004290 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272942004291 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272942004292 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 272942004293 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 272942004294 Protein of unknown function (DUF815); Region: DUF815; pfam05673 272942004295 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 272942004296 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 272942004297 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272942004298 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272942004299 active site 272942004300 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272942004301 TSCPD domain; Region: TSCPD; pfam12637 272942004302 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 272942004303 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 272942004304 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 272942004305 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 272942004306 active site 272942004307 FMN binding site [chemical binding]; other site 272942004308 substrate binding site [chemical binding]; other site 272942004309 3Fe-4S cluster binding site [ion binding]; other site 272942004310 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942004311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942004312 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 272942004313 dimerization interface [polypeptide binding]; other site 272942004314 substrate binding pocket [chemical binding]; other site 272942004315 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942004316 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272942004317 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 272942004318 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942004319 tetrameric interface [polypeptide binding]; other site 272942004320 NAD binding site [chemical binding]; other site 272942004321 catalytic residues [active] 272942004322 aspartate aminotransferase; Provisional; Region: PRK05764 272942004323 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942004324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942004325 homodimer interface [polypeptide binding]; other site 272942004326 catalytic residue [active] 272942004327 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 272942004328 Dehydroquinase class II; Region: DHquinase_II; pfam01220 272942004329 trimer interface [polypeptide binding]; other site 272942004330 active site 272942004331 dimer interface [polypeptide binding]; other site 272942004332 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 272942004333 Helix-turn-helix domain; Region: HTH_18; pfam12833 272942004334 Amino acid permease; Region: AA_permease_2; pfam13520 272942004335 ornithine cyclodeaminase; Validated; Region: PRK06199 272942004336 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 272942004337 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 272942004338 homotrimer interaction site [polypeptide binding]; other site 272942004339 putative active site [active] 272942004340 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942004341 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272942004342 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 272942004343 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272942004344 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272942004345 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272942004346 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942004347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942004348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942004349 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 272942004350 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942004351 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942004352 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272942004353 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 272942004354 Mg++ binding site [ion binding]; other site 272942004355 putative catalytic motif [active] 272942004356 putative substrate binding site [chemical binding]; other site 272942004357 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 272942004358 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942004359 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942004360 Uncharacterized conserved protein [Function unknown]; Region: COG3791 272942004361 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272942004362 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 272942004363 dimerization interface [polypeptide binding]; other site 272942004364 putative ATP binding site [chemical binding]; other site 272942004365 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 272942004366 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272942004367 active site 272942004368 substrate binding site [chemical binding]; other site 272942004369 cosubstrate binding site; other site 272942004370 catalytic site [active] 272942004371 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 272942004372 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272942004373 catalytic site [active] 272942004374 putative active site [active] 272942004375 putative substrate binding site [chemical binding]; other site 272942004376 HRDC domain; Region: HRDC; pfam00570 272942004377 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 272942004378 Part of AAA domain; Region: AAA_19; pfam13245 272942004379 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 272942004380 Family description; Region: UvrD_C_2; pfam13538 272942004381 putative GTP cyclohydrolase; Provisional; Region: PRK13674 272942004382 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 272942004383 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 272942004384 homodimer interface [polypeptide binding]; other site 272942004385 substrate-cofactor binding pocket; other site 272942004386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942004387 catalytic residue [active] 272942004388 elongation factor G; Reviewed; Region: PRK12740 272942004389 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 272942004390 Switch I region; other site 272942004391 G3 box; other site 272942004392 Switch II region; other site 272942004393 GTP/Mg2+ binding site [chemical binding]; other site 272942004394 G4 box; other site 272942004395 G5 box; other site 272942004396 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 272942004397 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 272942004398 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 272942004399 Peptidase C26; Region: Peptidase_C26; pfam07722 272942004400 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 272942004401 catalytic triad [active] 272942004402 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 272942004403 A new structural DNA glycosylase; Region: AlkD_like; cd06561 272942004404 active site 272942004405 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272942004406 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 272942004407 glutaminase active site [active] 272942004408 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 272942004409 dimer interface [polypeptide binding]; other site 272942004410 active site 272942004411 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 272942004412 dimer interface [polypeptide binding]; other site 272942004413 active site 272942004414 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 272942004415 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272942004416 Substrate binding site; other site 272942004417 Mg++ binding site; other site 272942004418 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 272942004419 active site 272942004420 substrate binding site [chemical binding]; other site 272942004421 CoA binding site [chemical binding]; other site 272942004422 phosphoglycolate phosphatase; Provisional; Region: PRK13222 272942004423 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942004424 motif II; other site 272942004425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942004426 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272942004427 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272942004428 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942004429 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942004430 catalytic residue [active] 272942004431 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272942004432 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942004433 putative active site [active] 272942004434 heme pocket [chemical binding]; other site 272942004435 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 272942004436 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942004437 ATP binding site [chemical binding]; other site 272942004438 Mg2+ binding site [ion binding]; other site 272942004439 G-X-G motif; other site 272942004440 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004442 active site 272942004443 phosphorylation site [posttranslational modification] 272942004444 intermolecular recognition site; other site 272942004445 dimerization interface [polypeptide binding]; other site 272942004446 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 272942004447 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942004448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004449 active site 272942004450 phosphorylation site [posttranslational modification] 272942004451 intermolecular recognition site; other site 272942004452 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942004453 DNA binding residues [nucleotide binding] 272942004454 dimerization interface [polypeptide binding]; other site 272942004455 isovaleryl-CoA dehydrogenase; Region: PLN02519 272942004456 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942004457 active site 272942004458 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 272942004459 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 272942004460 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 272942004461 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 272942004462 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942004463 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272942004464 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272942004465 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 272942004466 carboxyltransferase (CT) interaction site; other site 272942004467 biotinylation site [posttranslational modification]; other site 272942004468 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942004469 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272942004470 putative C-terminal domain interface [polypeptide binding]; other site 272942004471 putative GSH binding site (G-site) [chemical binding]; other site 272942004472 putative dimer interface [polypeptide binding]; other site 272942004473 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272942004474 N-terminal domain interface [polypeptide binding]; other site 272942004475 dimer interface [polypeptide binding]; other site 272942004476 substrate binding pocket (H-site) [chemical binding]; other site 272942004477 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 272942004478 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 272942004479 active site 272942004480 catalytic residues [active] 272942004481 metal binding site [ion binding]; metal-binding site 272942004482 enoyl-CoA hydratase; Provisional; Region: PRK07468 272942004483 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942004484 substrate binding site [chemical binding]; other site 272942004485 oxyanion hole (OAH) forming residues; other site 272942004486 trimer interface [polypeptide binding]; other site 272942004487 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 272942004488 NADH dehydrogenase subunit B; Validated; Region: PRK06411 272942004489 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 272942004490 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 272942004491 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 272942004492 NADH dehydrogenase subunit D; Validated; Region: PRK06075 272942004493 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 272942004494 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 272942004495 putative dimer interface [polypeptide binding]; other site 272942004496 [2Fe-2S] cluster binding site [ion binding]; other site 272942004497 Uncharacterized conserved protein [Function unknown]; Region: COG3743 272942004498 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 272942004499 SLBB domain; Region: SLBB; pfam10531 272942004500 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 272942004501 Ferredoxin; Provisional; Region: PLN03136 272942004502 Methyltransferase domain; Region: Methyltransf_24; pfam13578 272942004503 NADH dehydrogenase subunit G; Validated; Region: PRK09130 272942004504 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942004505 catalytic loop [active] 272942004506 iron binding site [ion binding]; other site 272942004507 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 272942004508 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 272942004509 molybdopterin cofactor binding site; other site 272942004510 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 272942004511 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 272942004512 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 272942004513 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 272942004514 4Fe-4S binding domain; Region: Fer4; pfam00037 272942004515 4Fe-4S binding domain; Region: Fer4; pfam00037 272942004516 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272942004517 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 272942004518 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 272942004519 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 272942004520 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 272942004521 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 272942004522 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 272942004523 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272942004524 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 272942004525 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272942004526 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 272942004527 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272942004528 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 272942004529 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272942004530 pantothenate kinase; Reviewed; Region: PRK13318 272942004531 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272942004532 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272942004533 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272942004534 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 272942004535 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272942004536 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272942004537 putative valine binding site [chemical binding]; other site 272942004538 dimer interface [polypeptide binding]; other site 272942004539 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272942004540 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 272942004541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272942004542 PYR/PP interface [polypeptide binding]; other site 272942004543 dimer interface [polypeptide binding]; other site 272942004544 TPP binding site [chemical binding]; other site 272942004545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272942004546 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 272942004547 TPP-binding site [chemical binding]; other site 272942004548 dimer interface [polypeptide binding]; other site 272942004549 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 272942004550 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 272942004551 DctM-like transporters; Region: DctM; pfam06808 272942004552 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 272942004553 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 272942004554 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 272942004555 dimer interface [polypeptide binding]; other site 272942004556 acyl-activating enzyme (AAE) consensus motif; other site 272942004557 putative active site [active] 272942004558 AMP binding site [chemical binding]; other site 272942004559 putative CoA binding site [chemical binding]; other site 272942004560 peptide chain release factor 2; Validated; Region: prfB; PRK00578 272942004561 This domain is found in peptide chain release factors; Region: PCRF; smart00937 272942004562 RF-1 domain; Region: RF-1; pfam00472 272942004563 hypothetical protein; Validated; Region: PRK06217 272942004564 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 272942004565 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272942004566 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942004567 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272942004568 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 272942004569 catalytic triad [active] 272942004570 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 272942004571 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272942004572 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 272942004573 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942004574 putative substrate translocation pore; other site 272942004575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942004576 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 272942004577 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 272942004578 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272942004579 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942004580 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942004581 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 272942004582 active site residue [active] 272942004583 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272942004584 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272942004585 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272942004586 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 272942004587 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942004588 S-adenosylmethionine binding site [chemical binding]; other site 272942004589 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 272942004590 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942004591 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942004592 ligand binding site [chemical binding]; other site 272942004593 flexible hinge region; other site 272942004594 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 272942004595 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272942004596 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 272942004597 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272942004598 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 272942004599 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942004600 substrate binding site [chemical binding]; other site 272942004601 oxyanion hole (OAH) forming residues; other site 272942004602 trimer interface [polypeptide binding]; other site 272942004603 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 272942004604 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942004605 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942004606 active site 272942004607 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 272942004608 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 272942004609 tetrameric interface [polypeptide binding]; other site 272942004610 NAD binding site [chemical binding]; other site 272942004611 catalytic residues [active] 272942004612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942004613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942004614 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272942004615 dimerization interface [polypeptide binding]; other site 272942004616 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 272942004617 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272942004618 active site 272942004619 (T/H)XGH motif; other site 272942004620 amidophosphoribosyltransferase; Provisional; Region: PRK09123 272942004621 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 272942004622 active site 272942004623 tetramer interface [polypeptide binding]; other site 272942004624 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942004625 active site 272942004626 Colicin V production protein; Region: Colicin_V; pfam02674 272942004627 DNA repair protein RadA; Provisional; Region: PRK11823 272942004628 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 272942004629 Walker A motif/ATP binding site; other site 272942004630 ATP binding site [chemical binding]; other site 272942004631 Walker B motif; other site 272942004632 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272942004633 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 272942004634 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 272942004635 Walker A/P-loop; other site 272942004636 ATP binding site [chemical binding]; other site 272942004637 Q-loop/lid; other site 272942004638 ABC transporter signature motif; other site 272942004639 Walker B; other site 272942004640 D-loop; other site 272942004641 H-loop/switch region; other site 272942004642 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 272942004643 Permease; Region: Permease; pfam02405 272942004644 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272942004645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272942004646 active site 272942004647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942004648 dimer interface [polypeptide binding]; other site 272942004649 substrate binding site [chemical binding]; other site 272942004650 catalytic residues [active] 272942004651 replicative DNA helicase; Provisional; Region: PRK09165 272942004652 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272942004653 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 272942004654 Walker A motif; other site 272942004655 ATP binding site [chemical binding]; other site 272942004656 Walker B motif; other site 272942004657 DNA binding loops [nucleotide binding] 272942004658 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942004659 active site 272942004660 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 272942004661 active site 272942004662 substrate binding pocket [chemical binding]; other site 272942004663 dimer interface [polypeptide binding]; other site 272942004664 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 272942004665 UreE urease accessory protein, C-terminal domain; Region: UreE_C; pfam05194 272942004666 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942004667 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942004668 Methyltransferase domain; Region: Methyltransf_24; pfam13578 272942004669 Protein of unknown function (DUF563); Region: DUF563; pfam04577 272942004670 GSCFA family; Region: GSCFA; pfam08885 272942004671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942004672 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942004673 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272942004674 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272942004675 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272942004676 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272942004677 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 272942004678 FAD binding pocket [chemical binding]; other site 272942004679 FAD binding motif [chemical binding]; other site 272942004680 phosphate binding motif [ion binding]; other site 272942004681 beta-alpha-beta structure motif; other site 272942004682 NAD binding pocket [chemical binding]; other site 272942004683 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 272942004684 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 272942004685 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 272942004686 Active Sites [active] 272942004687 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 272942004688 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272942004689 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272942004690 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 272942004691 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 272942004692 active site 272942004693 SAM binding site [chemical binding]; other site 272942004694 homodimer interface [polypeptide binding]; other site 272942004695 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942004696 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 272942004697 putative DNA binding site [nucleotide binding]; other site 272942004698 putative Zn2+ binding site [ion binding]; other site 272942004699 AsnC family; Region: AsnC_trans_reg; pfam01037 272942004700 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 272942004701 triosephosphate isomerase; Provisional; Region: PRK14565 272942004702 substrate binding site [chemical binding]; other site 272942004703 dimer interface [polypeptide binding]; other site 272942004704 catalytic triad [active] 272942004705 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 272942004706 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 272942004707 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 272942004708 FMN binding site [chemical binding]; other site 272942004709 active site 272942004710 substrate binding site [chemical binding]; other site 272942004711 catalytic residue [active] 272942004712 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 272942004713 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 272942004714 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 272942004715 Haemolysin-III related; Region: HlyIII; cl03831 272942004716 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 272942004717 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 272942004718 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 272942004719 active site 272942004720 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 272942004721 thiamine phosphate binding site [chemical binding]; other site 272942004722 active site 272942004723 pyrophosphate binding site [ion binding]; other site 272942004724 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 272942004725 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 272942004726 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 272942004727 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 272942004728 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 272942004729 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 272942004730 active site 272942004731 Zn binding site [ion binding]; other site 272942004732 Peptidase family M48; Region: Peptidase_M48; cl12018 272942004733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 272942004734 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 272942004735 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 272942004736 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 272942004737 substrate binding pocket [chemical binding]; other site 272942004738 dimer interface [polypeptide binding]; other site 272942004739 inhibitor binding site; inhibition site 272942004740 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 272942004741 FAD binding site [chemical binding]; other site 272942004742 Virulence factor; Region: Virulence_fact; pfam13769 272942004743 exopolyphosphatase; Region: exo_poly_only; TIGR03706 272942004744 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 272942004745 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 272942004746 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 272942004747 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272942004748 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272942004749 DNA-binding interface [nucleotide binding]; DNA binding site 272942004750 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942004751 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942004752 NAD(P) binding site [chemical binding]; other site 272942004753 catalytic residues [active] 272942004754 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004755 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942004756 dimer interface [polypeptide binding]; other site 272942004757 putative CheW interface [polypeptide binding]; other site 272942004758 hypothetical protein; Provisional; Region: PRK05208 272942004759 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272942004760 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 272942004761 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 272942004762 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 272942004763 putative nucleotide binding site [chemical binding]; other site 272942004764 uridine monophosphate binding site [chemical binding]; other site 272942004765 homohexameric interface [polypeptide binding]; other site 272942004766 ribosome recycling factor; Reviewed; Region: frr; PRK00083 272942004767 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 272942004768 hinge region; other site 272942004769 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 272942004770 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 272942004771 catalytic residue [active] 272942004772 putative FPP diphosphate binding site; other site 272942004773 putative FPP binding hydrophobic cleft; other site 272942004774 dimer interface [polypeptide binding]; other site 272942004775 putative IPP diphosphate binding site; other site 272942004776 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 272942004777 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 272942004778 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272942004779 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272942004780 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272942004781 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 272942004782 RIP metalloprotease RseP; Region: TIGR00054 272942004783 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 272942004784 active site 272942004785 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 272942004786 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 272942004787 putative substrate binding region [chemical binding]; other site 272942004788 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 272942004789 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272942004790 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272942004791 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272942004792 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272942004793 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272942004794 Surface antigen; Region: Bac_surface_Ag; pfam01103 272942004795 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 272942004796 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 272942004797 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 272942004798 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 272942004799 active site 272942004800 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 272942004801 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 272942004802 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 272942004803 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 272942004804 putative active site [active] 272942004805 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 272942004806 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272942004807 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 272942004808 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272942004809 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942004810 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272942004811 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 272942004812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 272942004813 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 272942004814 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942004815 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272942004816 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272942004817 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 272942004818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 272942004819 FMN-binding domain; Region: FMN_bind; cl01081 272942004820 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272942004821 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942004822 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942004823 ApbE family; Region: ApbE; pfam02424 272942004824 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942004825 substrate binding pocket [chemical binding]; other site 272942004826 membrane-bound complex binding site; other site 272942004827 hinge residues; other site 272942004828 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 272942004829 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942004830 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272942004831 membrane-bound complex binding site; other site 272942004832 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942004833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942004834 dimer interface [polypeptide binding]; other site 272942004835 conserved gate region; other site 272942004836 putative PBP binding loops; other site 272942004837 ABC-ATPase subunit interface; other site 272942004838 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 272942004839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004840 Walker A/P-loop; other site 272942004841 ATP binding site [chemical binding]; other site 272942004842 Q-loop/lid; other site 272942004843 ABC transporter signature motif; other site 272942004844 Walker B; other site 272942004845 D-loop; other site 272942004846 H-loop/switch region; other site 272942004847 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272942004848 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272942004849 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272942004850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942004851 Walker A/P-loop; other site 272942004852 ATP binding site [chemical binding]; other site 272942004853 Q-loop/lid; other site 272942004854 ABC transporter signature motif; other site 272942004855 Walker B; other site 272942004856 D-loop; other site 272942004857 H-loop/switch region; other site 272942004858 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272942004859 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272942004860 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272942004861 structural tetrad; other site 272942004862 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272942004863 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 272942004864 ligand binding site [chemical binding]; other site 272942004865 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272942004866 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272942004867 Cytochrome c; Region: Cytochrom_C; cl11414 272942004868 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272942004869 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 272942004870 dimer interface [polypeptide binding]; other site 272942004871 Trp docking motif [polypeptide binding]; other site 272942004872 active site 272942004873 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942004874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004875 active site 272942004876 phosphorylation site [posttranslational modification] 272942004877 intermolecular recognition site; other site 272942004878 dimerization interface [polypeptide binding]; other site 272942004879 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942004880 DNA binding residues [nucleotide binding] 272942004881 dimerization interface [polypeptide binding]; other site 272942004882 FIST N domain; Region: FIST; pfam08495 272942004883 FIST C domain; Region: FIST_C; pfam10442 272942004884 PAS fold; Region: PAS_7; pfam12860 272942004885 PAS fold; Region: PAS_7; pfam12860 272942004886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942004887 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 272942004888 phosphorylation site [posttranslational modification] 272942004889 dimer interface [polypeptide binding]; other site 272942004890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942004891 ATP binding site [chemical binding]; other site 272942004892 Mg2+ binding site [ion binding]; other site 272942004893 G-X-G motif; other site 272942004894 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004896 active site 272942004897 phosphorylation site [posttranslational modification] 272942004898 intermolecular recognition site; other site 272942004899 dimerization interface [polypeptide binding]; other site 272942004900 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 272942004901 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 272942004902 Ligand Binding Site [chemical binding]; other site 272942004903 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942004904 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942004905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942004906 active site 272942004907 phosphorylation site [posttranslational modification] 272942004908 intermolecular recognition site; other site 272942004909 dimerization interface [polypeptide binding]; other site 272942004910 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942004911 DNA binding site [nucleotide binding] 272942004912 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272942004913 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 272942004914 nucleotide binding pocket [chemical binding]; other site 272942004915 K-X-D-G motif; other site 272942004916 catalytic site [active] 272942004917 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272942004918 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272942004919 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272942004920 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 272942004921 ssDNA binding site; other site 272942004922 generic binding surface II; other site 272942004923 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942004924 ATP binding site [chemical binding]; other site 272942004925 putative Mg++ binding site [ion binding]; other site 272942004926 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942004927 nucleotide binding region [chemical binding]; other site 272942004928 ATP-binding site [chemical binding]; other site 272942004929 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004930 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942004931 dimer interface [polypeptide binding]; other site 272942004932 putative CheW interface [polypeptide binding]; other site 272942004933 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 272942004934 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272942004935 trimerization site [polypeptide binding]; other site 272942004936 active site 272942004937 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 272942004938 Hint domain; Region: Hint_2; pfam13403 272942004939 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 272942004940 putative substrate binding site [chemical binding]; other site 272942004941 putative ATP binding site [chemical binding]; other site 272942004942 Uncharacterized conserved protein [Function unknown]; Region: COG0062 272942004943 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 272942004944 Nitrogen regulatory protein P-II; Region: P-II; smart00938 272942004945 glutamine synthetase; Provisional; Region: glnA; PRK09469 272942004946 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272942004947 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942004948 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 272942004949 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272942004950 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272942004951 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272942004952 NAD(P) binding site [chemical binding]; other site 272942004953 homotetramer interface [polypeptide binding]; other site 272942004954 homodimer interface [polypeptide binding]; other site 272942004955 active site 272942004956 acyl carrier protein; Provisional; Region: acpP; PRK00982 272942004957 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 272942004958 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 272942004959 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 272942004960 dimer interface [polypeptide binding]; other site 272942004961 active site 272942004962 YceG-like family; Region: YceG; pfam02618 272942004963 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272942004964 dimerization interface [polypeptide binding]; other site 272942004965 Uncharacterized conserved protein [Function unknown]; Region: COG5323 272942004966 Phage-related protein [Function unknown]; Region: COG4695 272942004967 Phage portal protein; Region: Phage_portal; pfam04860 272942004968 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 272942004969 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272942004970 Phage capsid family; Region: Phage_capsid; pfam05065 272942004971 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 272942004972 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 272942004973 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 272942004974 Phage major tail protein 2; Region: Phage_tail_2; cl11463 272942004975 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 272942004976 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 272942004977 Phage-related minor tail protein [Function unknown]; Region: COG5281 272942004978 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 272942004979 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 272942004980 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 272942004981 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 272942004982 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272942004983 NlpC/P60 family; Region: NLPC_P60; cl17555 272942004984 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 272942004985 Putative phage tail protein; Region: Phage-tail_3; pfam13550 272942004986 serine acetyltransferase; Provisional; Region: cysE; PRK11132 272942004987 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 272942004988 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 272942004989 trimer interface [polypeptide binding]; other site 272942004990 active site 272942004991 substrate binding site [chemical binding]; other site 272942004992 CoA binding site [chemical binding]; other site 272942004993 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942004994 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272942004995 putative acyl-acceptor binding pocket; other site 272942004996 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 272942004997 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 272942004998 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272942004999 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 272942005000 E3 interaction surface; other site 272942005001 lipoyl attachment site [posttranslational modification]; other site 272942005002 e3 binding domain; Region: E3_binding; pfam02817 272942005003 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 272942005004 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 272942005005 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 272942005006 E3 interaction surface; other site 272942005007 lipoyl attachment site [posttranslational modification]; other site 272942005008 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 272942005009 alpha subunit interface [polypeptide binding]; other site 272942005010 TPP binding site [chemical binding]; other site 272942005011 heterodimer interface [polypeptide binding]; other site 272942005012 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942005013 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 272942005014 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 272942005015 tetramer interface [polypeptide binding]; other site 272942005016 TPP-binding site [chemical binding]; other site 272942005017 heterodimer interface [polypeptide binding]; other site 272942005018 phosphorylation loop region [posttranslational modification] 272942005019 Septum formation initiator; Region: DivIC; cl17659 272942005020 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 272942005021 catalytic residue [active] 272942005022 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 272942005023 Phosphoglycerate kinase; Region: PGK; pfam00162 272942005024 substrate binding site [chemical binding]; other site 272942005025 hinge regions; other site 272942005026 ADP binding site [chemical binding]; other site 272942005027 catalytic site [active] 272942005028 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 272942005029 active site 272942005030 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 272942005031 active site 272942005032 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272942005033 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272942005034 active site 272942005035 HIGH motif; other site 272942005036 dimer interface [polypeptide binding]; other site 272942005037 KMSKS motif; other site 272942005038 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942005039 RNA binding surface [nucleotide binding]; other site 272942005040 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 272942005041 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 272942005042 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 272942005043 enolase; Provisional; Region: eno; PRK00077 272942005044 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 272942005045 dimer interface [polypeptide binding]; other site 272942005046 metal binding site [ion binding]; metal-binding site 272942005047 substrate binding pocket [chemical binding]; other site 272942005048 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942005049 EamA-like transporter family; Region: EamA; pfam00892 272942005050 EamA-like transporter family; Region: EamA; pfam00892 272942005051 Uncharacterized conserved protein [Function unknown]; Region: COG0397 272942005052 hypothetical protein; Validated; Region: PRK00029 272942005053 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 272942005054 active site 272942005055 tetramer interface [polypeptide binding]; other site 272942005056 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272942005057 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942005058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942005059 ABC transporter; Region: ABC_tran_2; pfam12848 272942005060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942005061 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 272942005062 active site 272942005063 multimer interface [polypeptide binding]; other site 272942005064 TfoX C-terminal domain; Region: TfoX_C; pfam04994 272942005065 Transcriptional regulator; Region: Rrf2; cl17282 272942005066 Predicted transcriptional regulator [Transcription]; Region: COG1959 272942005067 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 272942005068 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 272942005069 agmatinase; Region: agmatinase; TIGR01230 272942005070 oligomer interface [polypeptide binding]; other site 272942005071 putative active site [active] 272942005072 Mn binding site [ion binding]; other site 272942005073 hypothetical protein; Provisional; Region: PRK14013 272942005074 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942005075 PAS domain; Region: PAS_9; pfam13426 272942005076 putative active site [active] 272942005077 heme pocket [chemical binding]; other site 272942005078 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942005079 PAS domain; Region: PAS_9; pfam13426 272942005080 putative active site [active] 272942005081 heme pocket [chemical binding]; other site 272942005082 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942005083 PAS domain; Region: PAS_9; pfam13426 272942005084 putative active site [active] 272942005085 heme pocket [chemical binding]; other site 272942005086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942005087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942005088 dimer interface [polypeptide binding]; other site 272942005089 putative CheW interface [polypeptide binding]; other site 272942005090 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 272942005091 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272942005092 phosphate binding site [ion binding]; other site 272942005093 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272942005094 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 272942005095 dimer interface [polypeptide binding]; other site 272942005096 PYR/PP interface [polypeptide binding]; other site 272942005097 TPP binding site [chemical binding]; other site 272942005098 substrate binding site [chemical binding]; other site 272942005099 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 272942005100 Domain of unknown function; Region: EKR; pfam10371 272942005101 4Fe-4S binding domain; Region: Fer4_6; pfam12837 272942005102 4Fe-4S binding domain; Region: Fer4; pfam00037 272942005103 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 272942005104 TPP-binding site [chemical binding]; other site 272942005105 dimer interface [polypeptide binding]; other site 272942005106 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 272942005107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272942005108 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942005109 putative protease; Provisional; Region: PRK15447 272942005110 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272942005111 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272942005112 Peptidase family U32; Region: Peptidase_U32; pfam01136 272942005113 SCP-2 sterol transfer family; Region: SCP2; cl01225 272942005114 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 272942005115 Flavoprotein; Region: Flavoprotein; pfam02441 272942005116 NnrS protein; Region: NnrS; pfam05940 272942005117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942005118 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 272942005119 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 272942005120 dimerization interface [polypeptide binding]; other site 272942005121 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 272942005122 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272942005123 heme binding site [chemical binding]; other site 272942005124 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272942005125 heme binding site [chemical binding]; other site 272942005126 ABC transporter ATPase component; Reviewed; Region: PRK11147 272942005127 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942005128 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942005129 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 272942005130 Domain of unknown function (DUF333); Region: DUF333; pfam03891 272942005131 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272942005132 CoA-transferase family III; Region: CoA_transf_3; pfam02515 272942005133 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272942005134 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272942005135 catalytic residues [active] 272942005136 aspartate aminotransferase; Provisional; Region: PRK05764 272942005137 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942005138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942005139 homodimer interface [polypeptide binding]; other site 272942005140 catalytic residue [active] 272942005141 AMIN domain; Region: AMIN; pfam11741 272942005142 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272942005143 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 272942005144 active site 272942005145 metal binding site [ion binding]; metal-binding site 272942005146 Protein of unknown function, DUF485; Region: DUF485; pfam04341 272942005147 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942005148 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 272942005149 Na binding site [ion binding]; other site 272942005150 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 272942005151 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 272942005152 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942005153 PAS domain; Region: PAS; smart00091 272942005154 putative active site [active] 272942005155 heme pocket [chemical binding]; other site 272942005156 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942005157 dimer interface [polypeptide binding]; other site 272942005158 phosphorylation site [posttranslational modification] 272942005159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942005160 ATP binding site [chemical binding]; other site 272942005161 Mg2+ binding site [ion binding]; other site 272942005162 G-X-G motif; other site 272942005163 Response regulator receiver domain; Region: Response_reg; pfam00072 272942005164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005165 active site 272942005166 phosphorylation site [posttranslational modification] 272942005167 intermolecular recognition site; other site 272942005168 dimerization interface [polypeptide binding]; other site 272942005169 recombinase A; Provisional; Region: recA; PRK09354 272942005170 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 272942005171 hexamer interface [polypeptide binding]; other site 272942005172 Walker A motif; other site 272942005173 ATP binding site [chemical binding]; other site 272942005174 Walker B motif; other site 272942005175 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272942005176 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 272942005177 motif 1; other site 272942005178 active site 272942005179 motif 2; other site 272942005180 motif 3; other site 272942005181 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272942005182 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 272942005183 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 272942005184 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 272942005185 putative active site [active] 272942005186 putative dimer interface [polypeptide binding]; other site 272942005187 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272942005188 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942005189 active site 272942005190 HIGH motif; other site 272942005191 nucleotide binding site [chemical binding]; other site 272942005192 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272942005193 KMSKS motif; other site 272942005194 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272942005195 tRNA binding surface [nucleotide binding]; other site 272942005196 anticodon binding site; other site 272942005197 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272942005198 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 272942005199 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 272942005200 active site 272942005201 catalytic residues [active] 272942005202 metal binding site [ion binding]; metal-binding site 272942005203 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 272942005204 Cache domain; Region: Cache_1; pfam02743 272942005205 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942005206 dimerization interface [polypeptide binding]; other site 272942005207 PAS domain; Region: PAS_9; pfam13426 272942005208 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272942005209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942005210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942005211 dimer interface [polypeptide binding]; other site 272942005212 putative CheW interface [polypeptide binding]; other site 272942005213 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272942005214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005215 active site 272942005216 phosphorylation site [posttranslational modification] 272942005217 intermolecular recognition site; other site 272942005218 CheB methylesterase; Region: CheB_methylest; pfam01339 272942005219 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 272942005220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942005221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005222 active site 272942005223 phosphorylation site [posttranslational modification] 272942005224 intermolecular recognition site; other site 272942005225 dimerization interface [polypeptide binding]; other site 272942005226 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272942005227 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272942005228 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942005229 S-adenosylmethionine binding site [chemical binding]; other site 272942005230 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 272942005231 putative CheA interaction surface; other site 272942005232 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272942005233 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 272942005234 putative binding surface; other site 272942005235 active site 272942005236 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272942005237 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942005238 ATP binding site [chemical binding]; other site 272942005239 Mg2+ binding site [ion binding]; other site 272942005240 G-X-G motif; other site 272942005241 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 272942005242 Response regulator receiver domain; Region: Response_reg; pfam00072 272942005243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005244 active site 272942005245 phosphorylation site [posttranslational modification] 272942005246 intermolecular recognition site; other site 272942005247 dimerization interface [polypeptide binding]; other site 272942005248 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 272942005249 anti sigma factor interaction site; other site 272942005250 regulatory phosphorylation site [posttranslational modification]; other site 272942005251 Glucokinase; Region: Glucokinase; pfam02685 272942005252 glucokinase, proteobacterial type; Region: glk; TIGR00749 272942005253 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272942005254 beta-galactosidase; Region: BGL; TIGR03356 272942005255 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942005256 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942005257 DNA binding site [nucleotide binding] 272942005258 domain linker motif; other site 272942005259 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 272942005260 ligand binding site [chemical binding]; other site 272942005261 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942005262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005263 dimer interface [polypeptide binding]; other site 272942005264 conserved gate region; other site 272942005265 putative PBP binding loops; other site 272942005266 ABC-ATPase subunit interface; other site 272942005267 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942005268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005269 ABC-ATPase subunit interface; other site 272942005270 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 272942005271 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 272942005272 active site 272942005273 catalytic site [active] 272942005274 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 272942005275 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942005276 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 272942005277 Walker A/P-loop; other site 272942005278 ATP binding site [chemical binding]; other site 272942005279 Q-loop/lid; other site 272942005280 ABC transporter signature motif; other site 272942005281 Walker B; other site 272942005282 D-loop; other site 272942005283 H-loop/switch region; other site 272942005284 TOBE domain; Region: TOBE_2; pfam08402 272942005285 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 272942005286 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 272942005287 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 272942005288 FMN binding site [chemical binding]; other site 272942005289 active site 272942005290 catalytic residues [active] 272942005291 substrate binding site [chemical binding]; other site 272942005292 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942005293 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 272942005294 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 272942005295 homodimer interface [polypeptide binding]; other site 272942005296 metal binding site [ion binding]; metal-binding site 272942005297 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 272942005298 homodimer interface [polypeptide binding]; other site 272942005299 active site 272942005300 putative chemical substrate binding site [chemical binding]; other site 272942005301 metal binding site [ion binding]; metal-binding site 272942005302 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942005303 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272942005304 metal binding site [ion binding]; metal-binding site 272942005305 putative dimer interface [polypeptide binding]; other site 272942005306 Preprotein translocase subunit; Region: YajC; pfam02699 272942005307 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 272942005308 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 272942005309 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272942005310 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272942005311 Protein export membrane protein; Region: SecD_SecF; pfam02355 272942005312 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 272942005313 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 272942005314 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 272942005315 Walker A/P-loop; other site 272942005316 ATP binding site [chemical binding]; other site 272942005317 Q-loop/lid; other site 272942005318 ABC transporter signature motif; other site 272942005319 Walker B; other site 272942005320 D-loop; other site 272942005321 H-loop/switch region; other site 272942005322 heme exporter protein CcmB; Region: ccmB; TIGR01190 272942005323 heme exporter protein CcmC; Region: ccmC; TIGR01191 272942005324 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 272942005325 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 272942005326 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 272942005327 catalytic residues [active] 272942005328 central insert; other site 272942005329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942005330 active site 272942005331 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 272942005332 putative coenzyme Q binding site [chemical binding]; other site 272942005333 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 272942005334 Competence-damaged protein; Region: CinA; pfam02464 272942005335 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 272942005336 tetramer interfaces [polypeptide binding]; other site 272942005337 binuclear metal-binding site [ion binding]; other site 272942005338 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 272942005339 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272942005340 substrate binding site; other site 272942005341 dimer interface; other site 272942005342 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 272942005343 homotrimer interaction site [polypeptide binding]; other site 272942005344 zinc binding site [ion binding]; other site 272942005345 CDP-binding sites; other site 272942005346 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 272942005347 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 272942005348 FMN binding site [chemical binding]; other site 272942005349 active site 272942005350 catalytic residues [active] 272942005351 substrate binding site [chemical binding]; other site 272942005352 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942005353 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942005354 putative active site [active] 272942005355 heme pocket [chemical binding]; other site 272942005356 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942005357 dimer interface [polypeptide binding]; other site 272942005358 phosphorylation site [posttranslational modification] 272942005359 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942005360 ATP binding site [chemical binding]; other site 272942005361 Mg2+ binding site [ion binding]; other site 272942005362 G-X-G motif; other site 272942005363 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 272942005364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005365 active site 272942005366 phosphorylation site [posttranslational modification] 272942005367 intermolecular recognition site; other site 272942005368 dimerization interface [polypeptide binding]; other site 272942005369 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942005370 Walker A motif; other site 272942005371 ATP binding site [chemical binding]; other site 272942005372 Walker B motif; other site 272942005373 arginine finger; other site 272942005374 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 272942005375 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272942005376 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942005377 dimerization interface [polypeptide binding]; other site 272942005378 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942005379 putative active site [active] 272942005380 heme pocket [chemical binding]; other site 272942005381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942005382 dimer interface [polypeptide binding]; other site 272942005383 phosphorylation site [posttranslational modification] 272942005384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942005385 ATP binding site [chemical binding]; other site 272942005386 Mg2+ binding site [ion binding]; other site 272942005387 G-X-G motif; other site 272942005388 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942005389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942005390 active site 272942005391 phosphorylation site [posttranslational modification] 272942005392 intermolecular recognition site; other site 272942005393 dimerization interface [polypeptide binding]; other site 272942005394 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942005395 Walker A motif; other site 272942005396 ATP binding site [chemical binding]; other site 272942005397 Walker B motif; other site 272942005398 arginine finger; other site 272942005399 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942005400 bacterial Hfq-like; Region: Hfq; cd01716 272942005401 hexamer interface [polypeptide binding]; other site 272942005402 Sm1 motif; other site 272942005403 RNA binding site [nucleotide binding]; other site 272942005404 Sm2 motif; other site 272942005405 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272942005406 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272942005407 HflX GTPase family; Region: HflX; cd01878 272942005408 G1 box; other site 272942005409 GTP/Mg2+ binding site [chemical binding]; other site 272942005410 Switch I region; other site 272942005411 G2 box; other site 272942005412 G3 box; other site 272942005413 Switch II region; other site 272942005414 G4 box; other site 272942005415 G5 box; other site 272942005416 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 272942005417 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 272942005418 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 272942005419 active site 272942005420 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272942005421 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272942005422 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272942005423 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272942005424 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 272942005425 dimer interface [polypeptide binding]; other site 272942005426 ssDNA binding site [nucleotide binding]; other site 272942005427 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942005428 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272942005429 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942005430 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942005431 catalytic residue [active] 272942005432 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 272942005433 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 272942005434 dimer interface [polypeptide binding]; other site 272942005435 active site 272942005436 aspartate-rich active site metal binding site; other site 272942005437 allosteric magnesium binding site [ion binding]; other site 272942005438 Schiff base residues; other site 272942005439 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272942005440 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 272942005441 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942005442 ATP binding site [chemical binding]; other site 272942005443 putative Mg++ binding site [ion binding]; other site 272942005444 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942005445 nucleotide binding region [chemical binding]; other site 272942005446 ATP-binding site [chemical binding]; other site 272942005447 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 272942005448 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 272942005449 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942005450 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 272942005451 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 272942005452 catalytic residues [active] 272942005453 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942005454 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 272942005455 acyl-activating enzyme (AAE) consensus motif; other site 272942005456 AMP binding site [chemical binding]; other site 272942005457 active site 272942005458 CoA binding site [chemical binding]; other site 272942005459 Entericidin EcnA/B family; Region: Entericidin; cl02322 272942005460 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272942005461 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 272942005462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005463 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 272942005464 NAD(P) binding site [chemical binding]; other site 272942005465 active site 272942005466 Uncharacterized conserved protein [Function unknown]; Region: COG2928 272942005467 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 272942005468 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272942005469 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 272942005470 substrate binding site [chemical binding]; other site 272942005471 ATP binding site [chemical binding]; other site 272942005472 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 272942005473 rRNA interaction site [nucleotide binding]; other site 272942005474 S8 interaction site; other site 272942005475 putative laminin-1 binding site; other site 272942005476 elongation factor Ts; Provisional; Region: tsf; PRK09377 272942005477 UBA/TS-N domain; Region: UBA; pfam00627 272942005478 Elongation factor TS; Region: EF_TS; pfam00889 272942005479 Elongation factor TS; Region: EF_TS; pfam00889 272942005480 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942005481 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942005482 DNA binding residues [nucleotide binding] 272942005483 dimerization interface [polypeptide binding]; other site 272942005484 Putative phosphatase (DUF442); Region: DUF442; cl17385 272942005485 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272942005486 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 272942005487 motif II; other site 272942005488 phosphoglycolate phosphatase; Provisional; Region: PRK13222 272942005489 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942005490 motif II; other site 272942005491 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 272942005492 putative catalytic residue [active] 272942005493 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 272942005494 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 272942005495 substrate binding site [chemical binding]; other site 272942005496 hexamer interface [polypeptide binding]; other site 272942005497 metal binding site [ion binding]; metal-binding site 272942005498 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 272942005499 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 272942005500 dimer interface [polypeptide binding]; other site 272942005501 active site 272942005502 catalytic residue [active] 272942005503 metal binding site [ion binding]; metal-binding site 272942005504 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 272942005505 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 272942005506 intersubunit interface [polypeptide binding]; other site 272942005507 active site 272942005508 zinc binding site [ion binding]; other site 272942005509 Na+ binding site [ion binding]; other site 272942005510 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 272942005511 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272942005512 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942005513 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 272942005514 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 272942005515 TPP-binding site [chemical binding]; other site 272942005516 dimer interface [polypeptide binding]; other site 272942005517 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 272942005518 PYR/PP interface [polypeptide binding]; other site 272942005519 dimer interface [polypeptide binding]; other site 272942005520 TPP binding site [chemical binding]; other site 272942005521 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942005522 phosphoribulokinase; Provisional; Region: PRK15453 272942005523 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 272942005524 AMP binding site [chemical binding]; other site 272942005525 fructose-1,6-bisphosphatase family protein; Region: PLN02628 272942005526 metal binding site [ion binding]; metal-binding site 272942005527 active site 272942005528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942005529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942005530 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942005531 dimerization interface [polypeptide binding]; other site 272942005532 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 272942005533 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 272942005534 NADP binding site [chemical binding]; other site 272942005535 dimer interface [polypeptide binding]; other site 272942005536 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 272942005537 phosphoglucomutase; Region: PLN02307 272942005538 substrate binding site [chemical binding]; other site 272942005539 dimer interface [polypeptide binding]; other site 272942005540 active site 272942005541 metal binding site [ion binding]; metal-binding site 272942005542 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 272942005543 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 272942005544 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 272942005545 active site 272942005546 catalytic site [active] 272942005547 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272942005548 glycogen synthase; Provisional; Region: glgA; PRK00654 272942005549 ADP-binding pocket [chemical binding]; other site 272942005550 homodimer interface [polypeptide binding]; other site 272942005551 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 272942005552 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272942005553 ligand binding site; other site 272942005554 oligomer interface; other site 272942005555 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272942005556 dimer interface [polypeptide binding]; other site 272942005557 N-terminal domain interface [polypeptide binding]; other site 272942005558 sulfate 1 binding site; other site 272942005559 glycogen branching enzyme; Provisional; Region: PRK05402 272942005560 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 272942005561 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 272942005562 active site 272942005563 catalytic site [active] 272942005564 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 272942005565 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272942005566 homodimer interface [polypeptide binding]; other site 272942005567 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272942005568 active site pocket [active] 272942005569 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 272942005570 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 272942005571 active site 272942005572 catalytic site [active] 272942005573 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 272942005574 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942005575 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942005576 dimer interface [polypeptide binding]; other site 272942005577 phosphorylation site [posttranslational modification] 272942005578 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942005579 ATP binding site [chemical binding]; other site 272942005580 Mg2+ binding site [ion binding]; other site 272942005581 G-X-G motif; other site 272942005582 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272942005583 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 272942005584 trimer interface [polypeptide binding]; other site 272942005585 putative metal binding site [ion binding]; other site 272942005586 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 272942005587 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 272942005588 catalytic site [active] 272942005589 G-X2-G-X-G-K; other site 272942005590 hypothetical protein; Provisional; Region: PRK11820 272942005591 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272942005592 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272942005593 PAS domain; Region: PAS_5; pfam07310 272942005594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 272942005595 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 272942005596 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272942005597 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272942005598 conserved cys residue [active] 272942005599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942005600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942005601 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 272942005602 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 272942005603 putative ligand binding site [chemical binding]; other site 272942005604 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942005605 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 272942005606 Walker A/P-loop; other site 272942005607 ATP binding site [chemical binding]; other site 272942005608 Q-loop/lid; other site 272942005609 ABC transporter signature motif; other site 272942005610 Walker B; other site 272942005611 D-loop; other site 272942005612 H-loop/switch region; other site 272942005613 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942005614 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 272942005615 Walker A/P-loop; other site 272942005616 ATP binding site [chemical binding]; other site 272942005617 Q-loop/lid; other site 272942005618 ABC transporter signature motif; other site 272942005619 Walker B; other site 272942005620 D-loop; other site 272942005621 H-loop/switch region; other site 272942005622 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 272942005623 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942005624 TM-ABC transporter signature motif; other site 272942005625 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 272942005626 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 272942005627 TM-ABC transporter signature motif; other site 272942005628 GMP synthase; Reviewed; Region: guaA; PRK00074 272942005629 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272942005630 AMP/PPi binding site [chemical binding]; other site 272942005631 candidate oxyanion hole; other site 272942005632 catalytic triad [active] 272942005633 potential glutamine specificity residues [chemical binding]; other site 272942005634 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 272942005635 ATP Binding subdomain [chemical binding]; other site 272942005636 Ligand Binding sites [chemical binding]; other site 272942005637 Dimerization subdomain; other site 272942005638 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272942005639 active site 272942005640 dimer interface [polypeptide binding]; other site 272942005641 metal binding site [ion binding]; metal-binding site 272942005642 shikimate kinase; Provisional; Region: PRK13946 272942005643 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 272942005644 ADP binding site [chemical binding]; other site 272942005645 magnesium binding site [ion binding]; other site 272942005646 putative shikimate binding site; other site 272942005647 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942005648 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 272942005649 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942005650 active site 272942005651 DNA binding site [nucleotide binding] 272942005652 Int/Topo IB signature motif; other site 272942005653 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 272942005654 Domain of unknown function DUF21; Region: DUF21; pfam01595 272942005655 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272942005656 Transporter associated domain; Region: CorC_HlyC; smart01091 272942005657 lipoyl synthase; Provisional; Region: PRK05481 272942005658 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942005659 FeS/SAM binding site; other site 272942005660 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 272942005661 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272942005662 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 272942005663 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 272942005664 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272942005665 dimer interface [polypeptide binding]; other site 272942005666 active site 272942005667 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 272942005668 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 272942005669 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 272942005670 trimer interface [polypeptide binding]; other site 272942005671 active site 272942005672 UDP-GlcNAc binding site [chemical binding]; other site 272942005673 lipid binding site [chemical binding]; lipid-binding site 272942005674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272942005675 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942005676 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942005677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 272942005678 Peptidase M15; Region: Peptidase_M15_3; cl01194 272942005679 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272942005680 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 272942005681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942005682 catalytic residue [active] 272942005683 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 272942005684 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 272942005685 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 272942005686 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 272942005687 Walker A/P-loop; other site 272942005688 ATP binding site [chemical binding]; other site 272942005689 Q-loop/lid; other site 272942005690 ABC transporter signature motif; other site 272942005691 Walker B; other site 272942005692 D-loop; other site 272942005693 H-loop/switch region; other site 272942005694 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942005695 S-adenosylmethionine binding site [chemical binding]; other site 272942005696 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 272942005697 putative ABC transporter; Region: ycf24; CHL00085 272942005698 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942005699 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 272942005700 Predicted transcriptional regulator [Transcription]; Region: COG1959 272942005701 Transcriptional regulator; Region: Rrf2; cl17282 272942005702 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272942005703 HD domain; Region: HD_3; pfam13023 272942005704 isocitrate dehydrogenase; Validated; Region: PRK08299 272942005705 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272942005706 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005707 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005708 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272942005709 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005710 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 272942005711 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272942005712 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 272942005713 G1 box; other site 272942005714 putative GEF interaction site [polypeptide binding]; other site 272942005715 GTP/Mg2+ binding site [chemical binding]; other site 272942005716 Switch I region; other site 272942005717 G2 box; other site 272942005718 G3 box; other site 272942005719 Switch II region; other site 272942005720 G4 box; other site 272942005721 G5 box; other site 272942005722 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 272942005723 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 272942005724 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942005725 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942005726 Walker A/P-loop; other site 272942005727 ATP binding site [chemical binding]; other site 272942005728 Q-loop/lid; other site 272942005729 ABC transporter signature motif; other site 272942005730 Walker B; other site 272942005731 D-loop; other site 272942005732 H-loop/switch region; other site 272942005733 TOBE domain; Region: TOBE_2; pfam08402 272942005734 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942005735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005736 dimer interface [polypeptide binding]; other site 272942005737 conserved gate region; other site 272942005738 putative PBP binding loops; other site 272942005739 ABC-ATPase subunit interface; other site 272942005740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272942005741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005742 putative PBP binding loops; other site 272942005743 ABC-ATPase subunit interface; other site 272942005744 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 272942005745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942005746 DNA-binding site [nucleotide binding]; DNA binding site 272942005747 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942005748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942005749 homodimer interface [polypeptide binding]; other site 272942005750 catalytic residue [active] 272942005751 Hint domain; Region: Hint_2; pfam13403 272942005752 Hint domain; Region: Hint_2; pfam13403 272942005753 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 272942005754 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 272942005755 Hint domain; Region: Hint_2; pfam13403 272942005756 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 272942005757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942005758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942005759 WHG domain; Region: WHG; pfam13305 272942005760 LysE type translocator; Region: LysE; cl00565 272942005761 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942005762 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 272942005763 putative DNA binding site [nucleotide binding]; other site 272942005764 putative Zn2+ binding site [ion binding]; other site 272942005765 AsnC family; Region: AsnC_trans_reg; pfam01037 272942005766 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272942005767 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 272942005768 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 272942005769 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 272942005770 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 272942005771 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272942005772 putative phosphate acyltransferase; Provisional; Region: PRK05331 272942005773 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272942005774 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 272942005775 dimer interface [polypeptide binding]; other site 272942005776 active site 272942005777 CoA binding pocket [chemical binding]; other site 272942005778 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272942005779 IHF dimer interface [polypeptide binding]; other site 272942005780 IHF - DNA interface [nucleotide binding]; other site 272942005781 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 272942005782 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 272942005783 DNA binding residues [nucleotide binding] 272942005784 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 272942005785 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272942005786 trimer interface [polypeptide binding]; other site 272942005787 active site 272942005788 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272942005789 trimer interface [polypeptide binding]; other site 272942005790 active site 272942005791 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272942005792 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272942005793 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 272942005794 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 272942005795 active site 272942005796 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA proteins; Region: TDT_TehA_like; cd09322 272942005797 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 272942005798 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942005799 EamA-like transporter family; Region: EamA; pfam00892 272942005800 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272942005801 Homoserine O-succinyltransferase; Region: HTS; pfam04204 272942005802 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 272942005803 proposed active site lysine [active] 272942005804 conserved cys residue [active] 272942005805 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272942005806 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942005807 active site 272942005808 Int/Topo IB signature motif; other site 272942005809 DNA binding site [nucleotide binding] 272942005810 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272942005811 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942005812 active site 272942005813 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272942005814 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942005815 ATP binding site [chemical binding]; other site 272942005816 putative Mg++ binding site [ion binding]; other site 272942005817 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 272942005818 nucleotide binding region [chemical binding]; other site 272942005819 ATP-binding site [chemical binding]; other site 272942005820 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 272942005821 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942005822 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 272942005823 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 272942005824 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942005825 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942005826 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272942005827 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942005828 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272942005829 catalytic residues [active] 272942005830 catalytic nucleophile [active] 272942005831 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942005832 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942005833 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942005834 Synaptic Site I dimer interface [polypeptide binding]; other site 272942005835 DNA binding site [nucleotide binding] 272942005836 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272942005837 DNA-binding interface [nucleotide binding]; DNA binding site 272942005838 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 272942005839 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 272942005840 Mg++ binding site [ion binding]; other site 272942005841 putative catalytic motif [active] 272942005842 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272942005843 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 272942005844 active site 272942005845 substrate binding site [chemical binding]; other site 272942005846 metal binding site [ion binding]; metal-binding site 272942005847 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 272942005848 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272942005849 Substrate binding site; other site 272942005850 Cupin domain; Region: Cupin_2; cl17218 272942005851 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942005852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005853 NAD(P) binding site [chemical binding]; other site 272942005854 active site 272942005855 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 272942005856 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 272942005857 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005858 hypothetical protein; Provisional; Region: PRK07208 272942005859 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942005860 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 272942005861 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 272942005862 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942005863 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 272942005864 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942005865 putative ADP-binding pocket [chemical binding]; other site 272942005866 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942005867 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005868 Chain length determinant protein; Region: Wzz; pfam02706 272942005869 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 272942005870 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 272942005871 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942005872 Bacterial sugar transferase; Region: Bac_transf; pfam02397 272942005873 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942005874 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942005875 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 272942005876 putative NAD(P) binding site [chemical binding]; other site 272942005877 active site 272942005878 putative substrate binding site [chemical binding]; other site 272942005879 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005880 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942005881 tyrosine kinase; Provisional; Region: PRK11519 272942005882 Chain length determinant protein; Region: Wzz; pfam02706 272942005883 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 272942005884 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942005885 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942005886 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272942005887 active site 272942005888 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 272942005889 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942005890 SLBB domain; Region: SLBB; pfam10531 272942005891 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 272942005892 active site 272942005893 HIGH motif; other site 272942005894 nucleotide binding site [chemical binding]; other site 272942005895 active site 272942005896 KMSKS motif; other site 272942005897 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 272942005898 Glucose inhibited division protein A; Region: GIDA; pfam01134 272942005899 DNA gyrase, A subunit; Region: gyrA; TIGR01063 272942005900 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 272942005901 CAP-like domain; other site 272942005902 active site 272942005903 primary dimer interface [polypeptide binding]; other site 272942005904 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005905 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005906 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005907 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005908 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 272942005909 Predicted membrane protein [Function unknown]; Region: COG1238 272942005910 Predicted metalloprotease [General function prediction only]; Region: COG2321 272942005911 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 272942005912 Helix-turn-helix domain; Region: HTH_17; pfam12728 272942005913 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 272942005914 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 272942005915 HNH endonuclease; Region: HNH; pfam01844 272942005916 active site 272942005917 Phage terminase, small subunit; Region: Terminase_4; pfam05119 272942005918 Phage Terminase; Region: Terminase_1; pfam03354 272942005919 Phage portal protein; Region: Phage_portal; pfam04860 272942005920 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272942005921 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 272942005922 tandem repeat interface [polypeptide binding]; other site 272942005923 oligomer interface [polypeptide binding]; other site 272942005924 active site residues [active] 272942005925 Phage capsid family; Region: Phage_capsid; pfam05065 272942005926 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272942005927 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 272942005928 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272942005929 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 272942005930 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 272942005931 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 272942005932 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942005933 TIGR02594 family protein; Region: TIGR02594 272942005934 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 272942005935 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 272942005936 integrase; Provisional; Region: PRK09692 272942005937 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 272942005938 active site 272942005939 Int/Topo IB signature motif; other site 272942005940 trigger factor; Provisional; Region: tig; PRK01490 272942005941 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272942005942 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272942005943 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272942005944 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272942005945 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272942005946 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 272942005947 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 272942005948 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942005949 EamA-like transporter family; Region: EamA; pfam00892 272942005950 EamA-like transporter family; Region: EamA; pfam00892 272942005951 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 272942005952 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 272942005953 NAD(P) binding site [chemical binding]; other site 272942005954 catalytic residues [active] 272942005955 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 272942005956 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 272942005957 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942005958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942005959 Walker A/P-loop; other site 272942005960 ATP binding site [chemical binding]; other site 272942005961 Q-loop/lid; other site 272942005962 ABC transporter signature motif; other site 272942005963 Walker B; other site 272942005964 D-loop; other site 272942005965 H-loop/switch region; other site 272942005966 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942005967 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942005968 TM-ABC transporter signature motif; other site 272942005969 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 272942005970 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272942005971 ligand binding site [chemical binding]; other site 272942005972 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272942005973 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942005974 motif II; other site 272942005975 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942005976 MarR family; Region: MarR_2; pfam12802 272942005977 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942005978 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 272942005979 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942005980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005981 putative PBP binding loops; other site 272942005982 ABC-ATPase subunit interface; other site 272942005983 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942005984 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942005985 dimer interface [polypeptide binding]; other site 272942005986 conserved gate region; other site 272942005987 putative PBP binding loops; other site 272942005988 ABC-ATPase subunit interface; other site 272942005989 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 272942005990 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 272942005991 Walker A/P-loop; other site 272942005992 ATP binding site [chemical binding]; other site 272942005993 Q-loop/lid; other site 272942005994 ABC transporter signature motif; other site 272942005995 Walker B; other site 272942005996 D-loop; other site 272942005997 H-loop/switch region; other site 272942005998 TOBE domain; Region: TOBE_2; pfam08402 272942005999 sorbitol dehydrogenase; Provisional; Region: PRK07067 272942006000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942006001 NAD(P) binding site [chemical binding]; other site 272942006002 active site 272942006003 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 272942006004 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272942006005 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272942006006 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 272942006007 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272942006008 G1 box; other site 272942006009 GTP/Mg2+ binding site [chemical binding]; other site 272942006010 Switch I region; other site 272942006011 G2 box; other site 272942006012 G3 box; other site 272942006013 Switch II region; other site 272942006014 G4 box; other site 272942006015 G5 box; other site 272942006016 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272942006017 Nucleoside recognition; Region: Gate; pfam07670 272942006018 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272942006019 Nucleoside recognition; Region: Gate; pfam07670 272942006020 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 272942006021 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 272942006022 Predicted membrane protein [Function unknown]; Region: COG3748 272942006023 Protein of unknown function (DUF989); Region: DUF989; pfam06181 272942006024 Cytochrome c; Region: Cytochrom_C; pfam00034 272942006025 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272942006026 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272942006027 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 272942006028 CitB domain protein; Region: CitB; TIGR02484 272942006029 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272942006030 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942006031 Walker A/P-loop; other site 272942006032 ATP binding site [chemical binding]; other site 272942006033 Q-loop/lid; other site 272942006034 ABC transporter signature motif; other site 272942006035 Walker B; other site 272942006036 D-loop; other site 272942006037 H-loop/switch region; other site 272942006038 Cobalt transport protein; Region: CbiQ; pfam02361 272942006039 cobalt transport protein; Region: cbiN; TIGR01165 272942006040 cobalt transport protein CbiM; Validated; Region: PRK08319 272942006041 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 272942006042 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 272942006043 active site 272942006044 SAM binding site [chemical binding]; other site 272942006045 homodimer interface [polypeptide binding]; other site 272942006046 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 272942006047 active site 272942006048 SAM binding site [chemical binding]; other site 272942006049 homodimer interface [polypeptide binding]; other site 272942006050 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 272942006051 active site 272942006052 SAM binding site [chemical binding]; other site 272942006053 homodimer interface [polypeptide binding]; other site 272942006054 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 272942006055 putative homodimer interface [polypeptide binding]; other site 272942006056 active site 272942006057 SAM binding site [chemical binding]; other site 272942006058 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 272942006059 Methyltransferase domain; Region: Methyltransf_18; pfam12847 272942006060 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 272942006061 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 272942006062 active site 272942006063 SAM binding site [chemical binding]; other site 272942006064 homodimer interface [polypeptide binding]; other site 272942006065 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 272942006066 active site 272942006067 SAM binding site [chemical binding]; other site 272942006068 homodimer interface [polypeptide binding]; other site 272942006069 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 272942006070 Precorrin-8X methylmutase; Region: CbiC; pfam02570 272942006071 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 272942006072 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272942006073 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 272942006074 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 272942006075 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 272942006076 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 272942006077 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 272942006078 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 272942006079 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 272942006080 homodimer interface [polypeptide binding]; other site 272942006081 Walker A motif; other site 272942006082 ATP binding site [chemical binding]; other site 272942006083 hydroxycobalamin binding site [chemical binding]; other site 272942006084 Walker B motif; other site 272942006085 cobyric acid synthase; Provisional; Region: PRK00784 272942006086 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942006087 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942006088 catalytic triad [active] 272942006089 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 272942006090 putative FMN binding site [chemical binding]; other site 272942006091 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942006092 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 272942006093 catalytic residue [active] 272942006094 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 272942006095 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 272942006096 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272942006097 catalytic core [active] 272942006098 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 272942006099 homotrimer interface [polypeptide binding]; other site 272942006100 Walker A motif; other site 272942006101 GTP binding site [chemical binding]; other site 272942006102 Walker B motif; other site 272942006103 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 272942006104 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272942006105 putative dimer interface [polypeptide binding]; other site 272942006106 active site pocket [active] 272942006107 putative cataytic base [active] 272942006108 cobalamin synthase; Reviewed; Region: cobS; PRK00235 272942006109 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 272942006110 protein-splicing catalytic site; other site 272942006111 thioester formation/cholesterol transfer; other site 272942006112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942006113 Coenzyme A binding pocket [chemical binding]; other site 272942006114 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 272942006115 putative chaperone; Provisional; Region: PRK11678 272942006116 nucleotide binding site [chemical binding]; other site 272942006117 putative NEF/HSP70 interaction site [polypeptide binding]; other site 272942006118 SBD interface [polypeptide binding]; other site 272942006119 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 272942006120 active site 272942006121 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942006122 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 272942006123 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942006124 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272942006125 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272942006126 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 272942006127 putative active site [active] 272942006128 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942006129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942006130 Walker A/P-loop; other site 272942006131 ATP binding site [chemical binding]; other site 272942006132 Q-loop/lid; other site 272942006133 ABC transporter signature motif; other site 272942006134 Walker B; other site 272942006135 D-loop; other site 272942006136 H-loop/switch region; other site 272942006137 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942006138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 272942006139 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942006140 binding surface 272942006141 TPR motif; other site 272942006142 TPR repeat; Region: TPR_11; pfam13414 272942006143 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942006144 binding surface 272942006145 TPR motif; other site 272942006146 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942006147 dimerization interface [polypeptide binding]; other site 272942006148 putative DNA binding site [nucleotide binding]; other site 272942006149 putative Zn2+ binding site [ion binding]; other site 272942006150 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942006151 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272942006152 active site 272942006153 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 272942006154 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 272942006155 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942006156 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 272942006157 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942006158 catalytic loop [active] 272942006159 iron binding site [ion binding]; other site 272942006160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942006161 putative active site [active] 272942006162 heme pocket [chemical binding]; other site 272942006163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942006164 metal binding site [ion binding]; metal-binding site 272942006165 active site 272942006166 I-site; other site 272942006167 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942006168 SET domain; Region: SET; pfam00856 272942006169 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272942006170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942006171 Mg2+ binding site [ion binding]; other site 272942006172 G-X-G motif; other site 272942006173 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 272942006174 anchoring element; other site 272942006175 dimer interface [polypeptide binding]; other site 272942006176 ATP binding site [chemical binding]; other site 272942006177 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 272942006178 active site 272942006179 metal binding site [ion binding]; metal-binding site 272942006180 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272942006181 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 272942006182 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942006183 motif II; other site 272942006184 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 272942006185 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 272942006186 dimer interaction site [polypeptide binding]; other site 272942006187 substrate-binding tunnel; other site 272942006188 active site 272942006189 catalytic site [active] 272942006190 substrate binding site [chemical binding]; other site 272942006191 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272942006192 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272942006193 active site 272942006194 Riboflavin kinase; Region: Flavokinase; pfam01687 272942006195 hypothetical protein; Provisional; Region: PRK05170 272942006196 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 272942006197 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 272942006198 tetramer interface [polypeptide binding]; other site 272942006199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006200 catalytic residue [active] 272942006201 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272942006202 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 272942006203 active site 272942006204 catalytic residues [active] 272942006205 DNA binding site [nucleotide binding] 272942006206 Int/Topo IB signature motif; other site 272942006207 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942006208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272942006209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272942006210 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272942006211 Transposase; Region: HTH_Tnp_1; pfam01527 272942006212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 272942006213 Transposase; Region: HTH_Tnp_1; pfam01527 272942006214 Transposase; Region: HTH_Tnp_1; pfam01527 272942006215 NACHT domain; Region: NACHT; pfam05729 272942006216 Protein of unknown function, DUF; Region: DUF411; cl01142 272942006217 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 272942006218 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 272942006219 Multicopper oxidase; Region: Cu-oxidase; pfam00394 272942006220 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 272942006221 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 272942006222 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272942006223 ornithine cyclodeaminase; Validated; Region: PRK07589 272942006224 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 272942006225 agmatinase; Region: agmatinase; TIGR01230 272942006226 Arginase family; Region: Arginase; cd09989 272942006227 active site 272942006228 Mn binding site [ion binding]; other site 272942006229 oligomer interface [polypeptide binding]; other site 272942006230 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942006231 AsnC family; Region: AsnC_trans_reg; pfam01037 272942006232 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942006233 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942006234 Walker A/P-loop; other site 272942006235 ATP binding site [chemical binding]; other site 272942006236 Q-loop/lid; other site 272942006237 ABC transporter signature motif; other site 272942006238 Walker B; other site 272942006239 H-loop/switch region; other site 272942006240 Cache domain; Region: Cache_2; pfam08269 272942006241 HAMP domain; Region: HAMP; pfam00672 272942006242 dimerization interface [polypeptide binding]; other site 272942006243 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942006244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942006245 dimer interface [polypeptide binding]; other site 272942006246 putative CheW interface [polypeptide binding]; other site 272942006247 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 272942006248 trimer interface [polypeptide binding]; other site 272942006249 active site 272942006250 substrate binding site [chemical binding]; other site 272942006251 CoA binding site [chemical binding]; other site 272942006252 Methyltransferase domain; Region: Methyltransf_23; pfam13489 272942006253 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942006254 S-adenosylmethionine binding site [chemical binding]; other site 272942006255 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942006256 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 272942006257 Walker A/P-loop; other site 272942006258 ATP binding site [chemical binding]; other site 272942006259 Q-loop/lid; other site 272942006260 ABC transporter signature motif; other site 272942006261 Walker B; other site 272942006262 D-loop; other site 272942006263 H-loop/switch region; other site 272942006264 TOBE domain; Region: TOBE_2; pfam08402 272942006265 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272942006266 active site 272942006267 catalytic site [active] 272942006268 substrate binding site [chemical binding]; other site 272942006269 Response regulator receiver domain; Region: Response_reg; pfam00072 272942006270 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942006271 active site 272942006272 phosphorylation site [posttranslational modification] 272942006273 intermolecular recognition site; other site 272942006274 dimerization interface [polypeptide binding]; other site 272942006275 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942006276 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942006277 ligand binding site [chemical binding]; other site 272942006278 flexible hinge region; other site 272942006279 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942006280 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942006281 metal binding triad; other site 272942006282 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942006283 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 272942006284 Na binding site [ion binding]; other site 272942006285 Protein of unknown function, DUF485; Region: DUF485; pfam04341 272942006286 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942006287 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 272942006288 active site 272942006289 CoA binding site [chemical binding]; other site 272942006290 acyl-activating enzyme (AAE) consensus motif; other site 272942006291 AMP binding site [chemical binding]; other site 272942006292 acetate binding site [chemical binding]; other site 272942006293 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 272942006294 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 272942006295 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 272942006296 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 272942006297 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272942006298 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 272942006299 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 272942006300 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 272942006301 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272942006302 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272942006303 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272942006304 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272942006305 active site 272942006306 metal binding site [ion binding]; metal-binding site 272942006307 DNA binding site [nucleotide binding] 272942006308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942006309 Walker A/P-loop; other site 272942006310 ATP binding site [chemical binding]; other site 272942006311 Q-loop/lid; other site 272942006312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942006313 ABC transporter signature motif; other site 272942006314 Walker B; other site 272942006315 D-loop; other site 272942006316 H-loop/switch region; other site 272942006317 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 272942006318 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272942006319 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272942006320 homodimer interface [polypeptide binding]; other site 272942006321 NADP binding site [chemical binding]; other site 272942006322 substrate binding site [chemical binding]; other site 272942006323 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272942006324 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 272942006325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942006326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942006327 dimer interface [polypeptide binding]; other site 272942006328 putative CheW interface [polypeptide binding]; other site 272942006329 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 272942006330 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272942006331 putative ligand binding site [chemical binding]; other site 272942006332 Predicted transcriptional regulator [Transcription]; Region: COG1959 272942006333 Transcriptional regulator; Region: Rrf2; pfam02082 272942006334 Cell division protein ZapA; Region: ZapA; pfam05164 272942006335 hypothetical protein; Provisional; Region: PRK11281 272942006336 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 272942006337 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 272942006338 TPP-binding site [chemical binding]; other site 272942006339 dimer interface [polypeptide binding]; other site 272942006340 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 272942006341 PYR/PP interface [polypeptide binding]; other site 272942006342 dimer interface [polypeptide binding]; other site 272942006343 TPP binding site [chemical binding]; other site 272942006344 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942006345 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942006346 EamA-like transporter family; Region: EamA; pfam00892 272942006347 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 272942006348 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272942006349 putative acyl-acceptor binding pocket; other site 272942006350 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 272942006351 aconitate hydratase; Validated; Region: PRK09277 272942006352 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 272942006353 substrate binding site [chemical binding]; other site 272942006354 ligand binding site [chemical binding]; other site 272942006355 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 272942006356 substrate binding site [chemical binding]; other site 272942006357 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942006358 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272942006359 putative CheW interface [polypeptide binding]; other site 272942006360 TM2 domain; Region: TM2; pfam05154 272942006361 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272942006362 TM2 domain; Region: TM2; pfam05154 272942006363 Predicted integral membrane protein [Function unknown]; Region: COG0392 272942006364 Uncharacterized conserved protein [Function unknown]; Region: COG2898 272942006365 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 272942006366 adenylosuccinate lyase; Provisional; Region: PRK07492 272942006367 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 272942006368 tetramer interface [polypeptide binding]; other site 272942006369 active site 272942006370 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272942006371 FliG C-terminal domain; Region: FliG_C; pfam01706 272942006372 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 272942006373 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272942006374 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942006375 Neuroendocrine protein 7B2 precursor (Secretogranin V); Region: Secretogranin_V; pfam05281 272942006376 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 272942006377 Transglycosylase; Region: Transgly; pfam00912 272942006378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272942006379 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272942006380 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 272942006381 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 272942006382 CPxP motif; other site 272942006383 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 272942006384 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 272942006385 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 272942006386 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272942006387 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942006388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942006389 active site 272942006390 phosphorylation site [posttranslational modification] 272942006391 intermolecular recognition site; other site 272942006392 dimerization interface [polypeptide binding]; other site 272942006393 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942006394 Walker A motif; other site 272942006395 ATP binding site [chemical binding]; other site 272942006396 Walker B motif; other site 272942006397 arginine finger; other site 272942006398 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942006399 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272942006400 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942006401 dimer interface [polypeptide binding]; other site 272942006402 phosphorylation site [posttranslational modification] 272942006403 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942006404 ATP binding site [chemical binding]; other site 272942006405 Mg2+ binding site [ion binding]; other site 272942006406 G-X-G motif; other site 272942006407 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 272942006408 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272942006409 putative active site [active] 272942006410 catalytic triad [active] 272942006411 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 272942006412 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 272942006413 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272942006414 ATP binding site [chemical binding]; other site 272942006415 active site 272942006416 substrate binding site [chemical binding]; other site 272942006417 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 272942006418 Predicted integral membrane protein [Function unknown]; Region: COG0392 272942006419 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 272942006420 methionine synthase I; Validated; Region: PRK07534 272942006421 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 272942006422 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272942006423 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942006424 FeS/SAM binding site; other site 272942006425 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 272942006426 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 272942006427 B12 binding site [chemical binding]; other site 272942006428 cobalt ligand [ion binding]; other site 272942006429 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 272942006430 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 272942006431 AzlC protein; Region: AzlC; pfam03591 272942006432 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942006433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006434 DNA-binding site [nucleotide binding]; DNA binding site 272942006435 FCD domain; Region: FCD; pfam07729 272942006436 putative aminotransferase; Validated; Region: PRK07480 272942006437 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942006438 inhibitor-cofactor binding pocket; inhibition site 272942006439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006440 catalytic residue [active] 272942006441 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942006442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942006443 Walker A/P-loop; other site 272942006444 ATP binding site [chemical binding]; other site 272942006445 Q-loop/lid; other site 272942006446 ABC transporter signature motif; other site 272942006447 Walker B; other site 272942006448 D-loop; other site 272942006449 H-loop/switch region; other site 272942006450 TOBE domain; Region: TOBE_2; pfam08402 272942006451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006452 ABC-ATPase subunit interface; other site 272942006453 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942006454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006455 putative PBP binding loops; other site 272942006456 ABC-ATPase subunit interface; other site 272942006457 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942006458 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 272942006459 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 272942006460 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 272942006461 active site 272942006462 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942006463 PAS domain; Region: PAS_9; pfam13426 272942006464 putative active site [active] 272942006465 heme pocket [chemical binding]; other site 272942006466 PAS fold; Region: PAS_3; pfam08447 272942006467 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942006468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942006469 metal binding site [ion binding]; metal-binding site 272942006470 active site 272942006471 I-site; other site 272942006472 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942006473 LabA_like proteins; Region: LabA_like/DUF88; cl10034 272942006474 putative metal binding site [ion binding]; other site 272942006475 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 272942006476 metal-binding site [ion binding] 272942006477 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 272942006478 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942006479 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272942006480 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 272942006481 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 272942006482 DNA binding residues [nucleotide binding] 272942006483 dimer interface [polypeptide binding]; other site 272942006484 putative metal binding site [ion binding]; other site 272942006485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942006486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942006487 putative substrate translocation pore; other site 272942006488 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942006489 endonuclease III; Region: ENDO3c; smart00478 272942006490 minor groove reading motif; other site 272942006491 helix-hairpin-helix signature motif; other site 272942006492 substrate binding pocket [chemical binding]; other site 272942006493 active site 272942006494 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 272942006495 putative hydrolase; Provisional; Region: PRK11460 272942006496 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 272942006497 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 272942006498 active site 272942006499 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942006500 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 272942006501 Response regulator receiver domain; Region: Response_reg; pfam00072 272942006502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942006503 active site 272942006504 phosphorylation site [posttranslational modification] 272942006505 intermolecular recognition site; other site 272942006506 dimerization interface [polypeptide binding]; other site 272942006507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942006508 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942006509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942006510 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 272942006511 Sensory domain found in PocR; Region: PocR; pfam10114 272942006512 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272942006513 Histidine kinase; Region: His_kinase; pfam06580 272942006514 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942006515 ATP binding site [chemical binding]; other site 272942006516 Mg2+ binding site [ion binding]; other site 272942006517 G-X-G motif; other site 272942006518 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 272942006519 4Fe-4S binding domain; Region: Fer4; pfam00037 272942006520 4Fe-4S binding domain; Region: Fer4_6; pfam12837 272942006521 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 272942006522 Hexamer interface [polypeptide binding]; other site 272942006523 Hexagonal pore residue; other site 272942006524 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 272942006525 putative catalytic cysteine [active] 272942006526 Domain of unknown function (DUF336); Region: DUF336; cl01249 272942006527 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 272942006528 Hexamer/Pentamer interface [polypeptide binding]; other site 272942006529 central pore; other site 272942006530 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 272942006531 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272942006532 nucleotide binding site [chemical binding]; other site 272942006533 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 272942006534 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272942006535 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272942006536 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 272942006537 Hexamer interface [polypeptide binding]; other site 272942006538 Hexagonal pore residue; other site 272942006539 propanediol utilization protein PduB; Provisional; Region: PRK15415 272942006540 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 272942006541 putative hexamer interface [polypeptide binding]; other site 272942006542 putative hexagonal pore; other site 272942006543 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 272942006544 putative hexamer interface [polypeptide binding]; other site 272942006545 putative hexagonal pore; other site 272942006546 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 272942006547 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 272942006548 Hexamer interface [polypeptide binding]; other site 272942006549 Putative hexagonal pore residue; other site 272942006550 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272942006551 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 272942006552 active site 272942006553 NAD binding site [chemical binding]; other site 272942006554 metal binding site [ion binding]; metal-binding site 272942006555 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 272942006556 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 272942006557 dimer interface [polypeptide binding]; other site 272942006558 active site 272942006559 glycine loop; other site 272942006560 intracellular protease, PfpI family; Region: PfpI; TIGR01382 272942006561 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 272942006562 conserved cys residue [active] 272942006563 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 272942006564 propionate/acetate kinase; Provisional; Region: PRK12379 272942006565 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272942006566 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 272942006567 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942006568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272942006569 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272942006570 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942006571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942006572 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272942006573 Walker A/P-loop; other site 272942006574 ATP binding site [chemical binding]; other site 272942006575 Q-loop/lid; other site 272942006576 ABC transporter signature motif; other site 272942006577 Walker B; other site 272942006578 D-loop; other site 272942006579 H-loop/switch region; other site 272942006580 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272942006581 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272942006582 catalytic triad [active] 272942006583 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 272942006584 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 272942006585 active site 272942006586 non-prolyl cis peptide bond; other site 272942006587 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942006588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006589 dimer interface [polypeptide binding]; other site 272942006590 conserved gate region; other site 272942006591 putative PBP binding loops; other site 272942006592 ABC-ATPase subunit interface; other site 272942006593 NMT1/THI5 like; Region: NMT1; pfam09084 272942006594 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 272942006595 substrate binding pocket [chemical binding]; other site 272942006596 membrane-bound complex binding site; other site 272942006597 hinge residues; other site 272942006598 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942006599 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272942006600 Walker A/P-loop; other site 272942006601 ATP binding site [chemical binding]; other site 272942006602 Q-loop/lid; other site 272942006603 ABC transporter signature motif; other site 272942006604 Walker B; other site 272942006605 D-loop; other site 272942006606 H-loop/switch region; other site 272942006607 Serine hydrolase; Region: Ser_hydrolase; pfam06821 272942006608 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942006609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 272942006610 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 272942006611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 272942006612 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272942006613 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272942006614 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272942006615 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942006616 nitrogenase iron protein; Region: nifH; TIGR01287 272942006617 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 272942006618 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 272942006619 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272942006620 PYR/PP interface [polypeptide binding]; other site 272942006621 dimer interface [polypeptide binding]; other site 272942006622 TPP binding site [chemical binding]; other site 272942006623 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272942006624 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272942006625 TPP-binding site [chemical binding]; other site 272942006626 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 272942006627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006628 DNA-binding site [nucleotide binding]; DNA binding site 272942006629 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942006630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006631 homodimer interface [polypeptide binding]; other site 272942006632 catalytic residue [active] 272942006633 aminotransferase; Validated; Region: PRK07678 272942006634 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942006635 inhibitor-cofactor binding pocket; inhibition site 272942006636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006637 catalytic residue [active] 272942006638 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 272942006639 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942006640 substrate binding pocket [chemical binding]; other site 272942006641 membrane-bound complex binding site; other site 272942006642 hinge residues; other site 272942006643 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942006644 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272942006645 Walker A/P-loop; other site 272942006646 ATP binding site [chemical binding]; other site 272942006647 Q-loop/lid; other site 272942006648 ABC transporter signature motif; other site 272942006649 Walker B; other site 272942006650 D-loop; other site 272942006651 H-loop/switch region; other site 272942006652 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942006653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006654 dimer interface [polypeptide binding]; other site 272942006655 conserved gate region; other site 272942006656 putative PBP binding loops; other site 272942006657 ABC-ATPase subunit interface; other site 272942006658 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272942006659 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 272942006660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942006661 catalytic residue [active] 272942006662 serine O-acetyltransferase; Region: cysE; TIGR01172 272942006663 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 272942006664 trimer interface [polypeptide binding]; other site 272942006665 active site 272942006666 substrate binding site [chemical binding]; other site 272942006667 CoA binding site [chemical binding]; other site 272942006668 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 272942006669 active site residue [active] 272942006670 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 272942006671 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272942006672 active site 272942006673 catalytic tetrad [active] 272942006674 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 272942006675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942006676 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942006677 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272942006678 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 272942006679 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 272942006680 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942006681 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272942006682 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 272942006683 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272942006684 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 272942006685 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 272942006686 Ligand Binding Site [chemical binding]; other site 272942006687 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 272942006688 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942006689 dimer interface [polypeptide binding]; other site 272942006690 phosphorylation site [posttranslational modification] 272942006691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942006692 ATP binding site [chemical binding]; other site 272942006693 Mg2+ binding site [ion binding]; other site 272942006694 G-X-G motif; other site 272942006695 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942006696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942006697 active site 272942006698 phosphorylation site [posttranslational modification] 272942006699 intermolecular recognition site; other site 272942006700 dimerization interface [polypeptide binding]; other site 272942006701 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942006702 DNA binding site [nucleotide binding] 272942006703 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 272942006704 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942006705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942006706 catalytic residue [active] 272942006707 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 272942006708 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 272942006709 putative trimer interface [polypeptide binding]; other site 272942006710 putative CoA binding site [chemical binding]; other site 272942006711 WbqC-like protein family; Region: WbqC; pfam08889 272942006712 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942006713 S-adenosylmethionine binding site [chemical binding]; other site 272942006714 active site 272942006715 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 272942006716 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 272942006717 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942006718 classical (c) SDRs; Region: SDR_c; cd05233 272942006719 NAD(P) binding site [chemical binding]; other site 272942006720 active site 272942006721 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942006722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006723 dimer interface [polypeptide binding]; other site 272942006724 conserved gate region; other site 272942006725 putative PBP binding loops; other site 272942006726 ABC-ATPase subunit interface; other site 272942006727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006728 putative PBP binding loops; other site 272942006729 dimer interface [polypeptide binding]; other site 272942006730 ABC-ATPase subunit interface; other site 272942006731 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942006732 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942006733 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942006734 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 272942006735 Walker A/P-loop; other site 272942006736 ATP binding site [chemical binding]; other site 272942006737 Q-loop/lid; other site 272942006738 ABC transporter signature motif; other site 272942006739 Walker B; other site 272942006740 D-loop; other site 272942006741 H-loop/switch region; other site 272942006742 TOBE domain; Region: TOBE_2; pfam08402 272942006743 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942006744 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942006745 DNA binding residues [nucleotide binding] 272942006746 dimerization interface [polypeptide binding]; other site 272942006747 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 272942006748 agmatinase; Region: agmatinase; TIGR01230 272942006749 oligomer interface [polypeptide binding]; other site 272942006750 putative active site [active] 272942006751 Mn binding site [ion binding]; other site 272942006752 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 272942006753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942006754 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942006755 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 272942006756 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 272942006757 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 272942006758 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272942006759 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272942006760 peptide binding site [polypeptide binding]; other site 272942006761 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 272942006762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006763 dimer interface [polypeptide binding]; other site 272942006764 conserved gate region; other site 272942006765 putative PBP binding loops; other site 272942006766 ABC-ATPase subunit interface; other site 272942006767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942006768 dimer interface [polypeptide binding]; other site 272942006769 conserved gate region; other site 272942006770 putative PBP binding loops; other site 272942006771 ABC-ATPase subunit interface; other site 272942006772 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 272942006773 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942006774 Walker A/P-loop; other site 272942006775 ATP binding site [chemical binding]; other site 272942006776 Q-loop/lid; other site 272942006777 ABC transporter signature motif; other site 272942006778 Walker B; other site 272942006779 D-loop; other site 272942006780 H-loop/switch region; other site 272942006781 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942006782 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942006783 Walker A/P-loop; other site 272942006784 ATP binding site [chemical binding]; other site 272942006785 Q-loop/lid; other site 272942006786 ABC transporter signature motif; other site 272942006787 Walker B; other site 272942006788 D-loop; other site 272942006789 H-loop/switch region; other site 272942006790 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 272942006791 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 272942006792 4Fe-4S binding domain; Region: Fer4; pfam00037 272942006793 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 272942006794 tetrathionate reductase subunit A; Provisional; Region: PRK14991 272942006795 molybdopterin cofactor binding site; other site 272942006796 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 272942006797 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 272942006798 molybdopterin cofactor binding site; other site 272942006799 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272942006800 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942006801 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272942006802 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272942006803 Predicted flavoprotein [General function prediction only]; Region: COG0431 272942006804 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 272942006805 two-component response regulator; Provisional; Region: PRK09191 272942006806 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272942006807 DNA binding residues [nucleotide binding] 272942006808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942006809 active site 272942006810 phosphorylation site [posttranslational modification] 272942006811 intermolecular recognition site; other site 272942006812 dimerization interface [polypeptide binding]; other site 272942006813 RNA polymerase sigma factor; Provisional; Region: PRK12547 272942006814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942006815 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 272942006816 DNA binding residues [nucleotide binding] 272942006817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942006818 Histidine kinase; Region: HisKA_2; pfam07568 272942006819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942006820 Histidine kinase; Region: HisKA_2; pfam07568 272942006821 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942006822 ATP binding site [chemical binding]; other site 272942006823 Mg2+ binding site [ion binding]; other site 272942006824 G-X-G motif; other site 272942006825 gamma-glutamyl kinase; Provisional; Region: PRK05429 272942006826 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 272942006827 nucleotide binding site [chemical binding]; other site 272942006828 homotetrameric interface [polypeptide binding]; other site 272942006829 putative phosphate binding site [ion binding]; other site 272942006830 putative allosteric binding site; other site 272942006831 PUA domain; Region: PUA; pfam01472 272942006832 GTPase CgtA; Reviewed; Region: obgE; PRK12299 272942006833 GTP1/OBG; Region: GTP1_OBG; pfam01018 272942006834 Obg GTPase; Region: Obg; cd01898 272942006835 G1 box; other site 272942006836 GTP/Mg2+ binding site [chemical binding]; other site 272942006837 Switch I region; other site 272942006838 G2 box; other site 272942006839 G3 box; other site 272942006840 Switch II region; other site 272942006841 G4 box; other site 272942006842 G5 box; other site 272942006843 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272942006844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272942006845 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272942006846 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272942006847 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 272942006848 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 272942006849 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 272942006850 GTP-binding protein Der; Reviewed; Region: PRK00093 272942006851 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 272942006852 G1 box; other site 272942006853 GTP/Mg2+ binding site [chemical binding]; other site 272942006854 Switch I region; other site 272942006855 G2 box; other site 272942006856 Switch II region; other site 272942006857 G3 box; other site 272942006858 G4 box; other site 272942006859 G5 box; other site 272942006860 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 272942006861 G1 box; other site 272942006862 GTP/Mg2+ binding site [chemical binding]; other site 272942006863 Switch I region; other site 272942006864 G2 box; other site 272942006865 G3 box; other site 272942006866 Switch II region; other site 272942006867 G4 box; other site 272942006868 G5 box; other site 272942006869 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 272942006870 Trp docking motif [polypeptide binding]; other site 272942006871 active site 272942006872 PQQ-like domain; Region: PQQ_2; pfam13360 272942006873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942006874 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 272942006875 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 272942006876 Walker A/P-loop; other site 272942006877 ATP binding site [chemical binding]; other site 272942006878 Q-loop/lid; other site 272942006879 ABC transporter signature motif; other site 272942006880 Walker B; other site 272942006881 D-loop; other site 272942006882 H-loop/switch region; other site 272942006883 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272942006884 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272942006885 Predicted permeases [General function prediction only]; Region: RarD; COG2962 272942006886 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 272942006887 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 272942006888 substrate binding site [chemical binding]; other site 272942006889 tetramer interface [polypeptide binding]; other site 272942006890 catalytic residue [active] 272942006891 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272942006892 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272942006893 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272942006894 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272942006895 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 272942006896 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 272942006897 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942006898 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 272942006899 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 272942006900 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942006901 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 272942006902 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 272942006903 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 272942006904 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 272942006905 Hint domain; Region: Hint_2; pfam13403 272942006906 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 272942006907 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 272942006908 G1 box; other site 272942006909 putative GEF interaction site [polypeptide binding]; other site 272942006910 GTP/Mg2+ binding site [chemical binding]; other site 272942006911 Switch I region; other site 272942006912 G2 box; other site 272942006913 G3 box; other site 272942006914 Switch II region; other site 272942006915 G4 box; other site 272942006916 G5 box; other site 272942006917 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 272942006918 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 272942006919 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272942006920 Zn2+ binding site [ion binding]; other site 272942006921 Mg2+ binding site [ion binding]; other site 272942006922 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 272942006923 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 272942006924 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942006925 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 272942006926 Int/Topo IB signature motif; other site 272942006927 Phage-related protein [Function unknown]; Region: COG4695 272942006928 Phage portal protein; Region: Phage_portal; pfam04860 272942006929 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 272942006930 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 272942006931 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272942006932 Phage capsid family; Region: Phage_capsid; pfam05065 272942006933 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 272942006934 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 272942006935 active site 272942006936 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 272942006937 oligomerization interface [polypeptide binding]; other site 272942006938 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 272942006939 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 272942006940 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 272942006941 Phage terminase, small subunit; Region: Terminase_4; pfam05119 272942006942 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 272942006943 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 272942006944 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 272942006945 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 272942006946 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942006947 DNA-binding site [nucleotide binding]; DNA binding site 272942006948 RNA-binding motif; other site 272942006949 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942006950 DNA-binding site [nucleotide binding]; DNA binding site 272942006951 RNA-binding motif; other site 272942006952 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 272942006953 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 272942006954 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 272942006955 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 272942006956 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272942006957 NAD binding site [chemical binding]; other site 272942006958 homotetramer interface [polypeptide binding]; other site 272942006959 homodimer interface [polypeptide binding]; other site 272942006960 substrate binding site [chemical binding]; other site 272942006961 active site 272942006962 LysE type translocator; Region: LysE; cl00565 272942006963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942006964 active site 272942006965 hypothetical protein; Provisional; Region: PRK07550 272942006966 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942006967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006968 homodimer interface [polypeptide binding]; other site 272942006969 catalytic residue [active] 272942006970 SurA N-terminal domain; Region: SurA_N_3; cl07813 272942006971 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 272942006972 anthranilate synthase component I; Provisional; Region: PRK13573 272942006973 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272942006974 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 272942006975 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 272942006976 NodB motif; other site 272942006977 putative active site [active] 272942006978 putative catalytic site [active] 272942006979 Zn binding site [ion binding]; other site 272942006980 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272942006981 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272942006982 glutamine binding [chemical binding]; other site 272942006983 catalytic triad [active] 272942006984 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272942006985 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272942006986 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272942006987 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 272942006988 active site 272942006989 ribulose/triose binding site [chemical binding]; other site 272942006990 phosphate binding site [ion binding]; other site 272942006991 substrate (anthranilate) binding pocket [chemical binding]; other site 272942006992 product (indole) binding pocket [chemical binding]; other site 272942006993 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 272942006994 trimer interface [polypeptide binding]; other site 272942006995 dimer interface [polypeptide binding]; other site 272942006996 putative active site [active] 272942006997 LexA repressor; Validated; Region: PRK00215 272942006998 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 272942006999 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272942007000 Catalytic site [active] 272942007001 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 272942007002 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 272942007003 Competence protein; Region: Competence; pfam03772 272942007004 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272942007005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942007006 HIGH motif; other site 272942007007 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942007008 active site 272942007009 KMSKS motif; other site 272942007010 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 272942007011 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 272942007012 dimer interface [polypeptide binding]; other site 272942007013 active site 272942007014 citrylCoA binding site [chemical binding]; other site 272942007015 NADH binding [chemical binding]; other site 272942007016 cationic pore residues; other site 272942007017 oxalacetate/citrate binding site [chemical binding]; other site 272942007018 coenzyme A binding site [chemical binding]; other site 272942007019 catalytic triad [active] 272942007020 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 272942007021 NnrS protein; Region: NnrS; pfam05940 272942007022 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272942007023 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942007024 motif II; other site 272942007025 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 272942007026 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 272942007027 N- and C-terminal domain interface [polypeptide binding]; other site 272942007028 active site 272942007029 MgATP binding site [chemical binding]; other site 272942007030 catalytic site [active] 272942007031 metal binding site [ion binding]; metal-binding site 272942007032 carbohydrate binding site [chemical binding]; other site 272942007033 putative homodimer interface [polypeptide binding]; other site 272942007034 classical (c) SDRs; Region: SDR_c; cd05233 272942007035 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 272942007036 NAD(P) binding site [chemical binding]; other site 272942007037 active site 272942007038 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942007039 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942007040 TM-ABC transporter signature motif; other site 272942007041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942007042 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942007043 Walker A/P-loop; other site 272942007044 ATP binding site [chemical binding]; other site 272942007045 Q-loop/lid; other site 272942007046 ABC transporter signature motif; other site 272942007047 Walker B; other site 272942007048 D-loop; other site 272942007049 H-loop/switch region; other site 272942007050 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 272942007051 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 272942007052 putative ligand binding site [chemical binding]; other site 272942007053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942007054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942007055 DNA binding site [nucleotide binding] 272942007056 domain linker motif; other site 272942007057 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 272942007058 dimerization interface [polypeptide binding]; other site 272942007059 ligand binding site [chemical binding]; other site 272942007060 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272942007061 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272942007062 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 272942007063 Gram-negative bacterial tonB protein; Region: TonB; cl10048 272942007064 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272942007065 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 272942007066 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 272942007067 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272942007068 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272942007069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272942007070 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 272942007071 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 272942007072 MraW methylase family; Region: Methyltransf_5; cl17771 272942007073 cell division protein MraZ; Reviewed; Region: PRK00326 272942007074 MraZ protein; Region: MraZ; pfam02381 272942007075 MraZ protein; Region: MraZ; pfam02381 272942007076 Domain of unknown function DUF59; Region: DUF59; pfam01883 272942007077 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 272942007078 Walker A motif; other site 272942007079 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 272942007080 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 272942007081 Intracellular septation protein A; Region: IspA; pfam04279 272942007082 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 272942007083 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 272942007084 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 272942007085 P loop; other site 272942007086 GTP binding site [chemical binding]; other site 272942007087 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 272942007088 Fatty acid desaturase; Region: FA_desaturase; pfam00487 272942007089 Di-iron ligands [ion binding]; other site 272942007090 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272942007091 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 272942007092 generic binding surface I; other site 272942007093 generic binding surface II; other site 272942007094 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272942007095 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272942007096 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 272942007097 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272942007098 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 272942007099 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272942007100 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 272942007101 Hint domain; Region: Hint_2; pfam13403 272942007102 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 272942007103 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942007104 active site 272942007105 dimer interface [polypeptide binding]; other site 272942007106 glutathione reductase; Validated; Region: PRK06116 272942007107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942007108 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942007109 HflK protein; Region: hflK; TIGR01933 272942007110 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 272942007111 HflC protein; Region: hflC; TIGR01932 272942007112 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 272942007113 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272942007114 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272942007115 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 272942007116 protein binding site [polypeptide binding]; other site 272942007117 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 272942007118 protein binding site [polypeptide binding]; other site 272942007119 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942007120 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 272942007121 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942007122 catalytic loop [active] 272942007123 iron binding site [ion binding]; other site 272942007124 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 272942007125 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 272942007126 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 272942007127 putative active site [active] 272942007128 putative substrate binding site [chemical binding]; other site 272942007129 putative cosubstrate binding site; other site 272942007130 catalytic site [active] 272942007131 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 272942007132 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 272942007133 active site 272942007134 dimer interface [polypeptide binding]; other site 272942007135 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 272942007136 dimer interface [polypeptide binding]; other site 272942007137 active site 272942007138 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 272942007139 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 272942007140 putative active site [active] 272942007141 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272942007142 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272942007143 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272942007144 PIN domain; Region: PIN_3; pfam13470 272942007145 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 272942007146 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 272942007147 putative RNA binding site [nucleotide binding]; other site 272942007148 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272942007149 phosphogluconate dehydratase; Validated; Region: PRK09054 272942007150 6-phosphogluconate dehydratase; Region: edd; TIGR01196 272942007151 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 272942007152 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272942007153 active site 272942007154 intersubunit interface [polypeptide binding]; other site 272942007155 catalytic residue [active] 272942007156 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 272942007157 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942007158 metal binding triad; other site 272942007159 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942007160 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942007161 metal binding triad; other site 272942007162 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942007163 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 272942007164 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 272942007165 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 272942007166 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 272942007167 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 272942007168 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272942007169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007170 short chain dehydrogenase; Provisional; Region: PRK09134 272942007171 NAD(P) binding site [chemical binding]; other site 272942007172 active site 272942007173 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272942007174 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 272942007175 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272942007176 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 272942007177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 272942007178 Putative glucoamylase; Region: Glycoamylase; pfam10091 272942007179 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 272942007180 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 272942007181 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 272942007182 sepiapterin reductase; Region: sepiapter_red; TIGR01500 272942007183 classical (c) SDRs; Region: SDR_c; cd05233 272942007184 NAD(P) binding site [chemical binding]; other site 272942007185 active site 272942007186 stationary phase survival protein SurE; Provisional; Region: PRK13931 272942007187 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 272942007188 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942007189 S-adenosylmethionine binding site [chemical binding]; other site 272942007190 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272942007191 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272942007192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272942007193 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942007194 putative transporter; Validated; Region: PRK03818 272942007195 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 272942007196 TrkA-C domain; Region: TrkA_C; pfam02080 272942007197 TrkA-C domain; Region: TrkA_C; pfam02080 272942007198 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 272942007199 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 272942007200 putative catalytic site [active] 272942007201 putative phosphate binding site [ion binding]; other site 272942007202 active site 272942007203 metal binding site A [ion binding]; metal-binding site 272942007204 DNA binding site [nucleotide binding] 272942007205 putative AP binding site [nucleotide binding]; other site 272942007206 putative metal binding site B [ion binding]; other site 272942007207 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 272942007208 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 272942007209 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272942007210 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942007211 Walker A motif; other site 272942007212 ATP binding site [chemical binding]; other site 272942007213 Walker B motif; other site 272942007214 arginine finger; other site 272942007215 Methyltransferase domain; Region: Methyltransf_24; pfam13578 272942007216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942007217 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 272942007218 active site 272942007219 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942007220 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 272942007221 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 272942007222 Cytochrome P450; Region: p450; cl12078 272942007223 acyl-CoA synthetase; Validated; Region: PRK05850 272942007224 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 272942007225 acyl-activating enzyme (AAE) consensus motif; other site 272942007226 active site 272942007227 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 272942007228 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942007229 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942007230 putative DNA binding site [nucleotide binding]; other site 272942007231 putative Zn2+ binding site [ion binding]; other site 272942007232 AsnC family; Region: AsnC_trans_reg; pfam01037 272942007233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272942007234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942007235 DNA-binding site [nucleotide binding]; DNA binding site 272942007236 FCD domain; Region: FCD; pfam07729 272942007237 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272942007238 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272942007239 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942007240 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 272942007241 TM-ABC transporter signature motif; other site 272942007242 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942007243 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 272942007244 TM-ABC transporter signature motif; other site 272942007245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942007246 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 272942007247 Walker A/P-loop; other site 272942007248 ATP binding site [chemical binding]; other site 272942007249 Q-loop/lid; other site 272942007250 ABC transporter signature motif; other site 272942007251 Walker B; other site 272942007252 D-loop; other site 272942007253 H-loop/switch region; other site 272942007254 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942007255 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 272942007256 Walker A/P-loop; other site 272942007257 ATP binding site [chemical binding]; other site 272942007258 Q-loop/lid; other site 272942007259 ABC transporter signature motif; other site 272942007260 Walker B; other site 272942007261 D-loop; other site 272942007262 H-loop/switch region; other site 272942007263 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272942007264 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942007265 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 272942007266 NAD(P) binding site [chemical binding]; other site 272942007267 catalytic residues [active] 272942007268 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942007269 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007270 dimer interface [polypeptide binding]; other site 272942007271 conserved gate region; other site 272942007272 putative PBP binding loops; other site 272942007273 ABC-ATPase subunit interface; other site 272942007274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007275 dimer interface [polypeptide binding]; other site 272942007276 conserved gate region; other site 272942007277 putative PBP binding loops; other site 272942007278 ABC-ATPase subunit interface; other site 272942007279 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942007280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942007281 Walker A/P-loop; other site 272942007282 ATP binding site [chemical binding]; other site 272942007283 Q-loop/lid; other site 272942007284 ABC transporter signature motif; other site 272942007285 Walker B; other site 272942007286 D-loop; other site 272942007287 H-loop/switch region; other site 272942007288 TOBE domain; Region: TOBE_2; pfam08402 272942007289 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942007290 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 272942007291 PAS domain; Region: PAS_9; pfam13426 272942007292 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272942007293 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942007294 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 272942007295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272942007296 FtsX-like permease family; Region: FtsX; pfam02687 272942007297 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942007298 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272942007299 Walker A/P-loop; other site 272942007300 ATP binding site [chemical binding]; other site 272942007301 Q-loop/lid; other site 272942007302 ABC transporter signature motif; other site 272942007303 Walker B; other site 272942007304 D-loop; other site 272942007305 H-loop/switch region; other site 272942007306 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942007307 ArsC family; Region: ArsC; pfam03960 272942007308 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 272942007309 non-specific DNA binding site [nucleotide binding]; other site 272942007310 salt bridge; other site 272942007311 sequence-specific DNA binding site [nucleotide binding]; other site 272942007312 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942007313 DNA-binding site [nucleotide binding]; DNA binding site 272942007314 RNA-binding motif; other site 272942007315 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272942007316 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 272942007317 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272942007318 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 272942007319 active site 272942007320 dimer interface [polypeptide binding]; other site 272942007321 motif 1; other site 272942007322 motif 2; other site 272942007323 motif 3; other site 272942007324 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 272942007325 anticodon binding site; other site 272942007326 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 272942007327 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942007328 prolyl-tRNA synthetase; Provisional; Region: PRK12325 272942007329 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 272942007330 dimer interface [polypeptide binding]; other site 272942007331 motif 1; other site 272942007332 active site 272942007333 motif 2; other site 272942007334 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942007335 active site 272942007336 motif 3; other site 272942007337 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 272942007338 anticodon binding site; other site 272942007339 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 272942007340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 272942007341 Protein of unknown function DUF45; Region: DUF45; pfam01863 272942007342 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942007343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942007344 DNA-binding site [nucleotide binding]; DNA binding site 272942007345 FCD domain; Region: FCD; pfam07729 272942007346 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 272942007347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942007348 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942007349 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 272942007350 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 272942007351 active site residue [active] 272942007352 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272942007353 catalytic residues [active] 272942007354 dimer interface [polypeptide binding]; other site 272942007355 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272942007356 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 272942007357 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272942007358 DHHA2 domain; Region: DHHA2; pfam02833 272942007359 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 272942007360 oligomerisation interface [polypeptide binding]; other site 272942007361 mobile loop; other site 272942007362 roof hairpin; other site 272942007363 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272942007364 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 272942007365 ring oligomerisation interface [polypeptide binding]; other site 272942007366 ATP/Mg binding site [chemical binding]; other site 272942007367 stacking interactions; other site 272942007368 hinge regions; other site 272942007369 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 272942007370 DNA polymerase I; Provisional; Region: PRK05755 272942007371 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272942007372 active site 272942007373 metal binding site 1 [ion binding]; metal-binding site 272942007374 putative 5' ssDNA interaction site; other site 272942007375 metal binding site 3; metal-binding site 272942007376 metal binding site 2 [ion binding]; metal-binding site 272942007377 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272942007378 putative DNA binding site [nucleotide binding]; other site 272942007379 putative metal binding site [ion binding]; other site 272942007380 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 272942007381 active site 272942007382 catalytic site [active] 272942007383 substrate binding site [chemical binding]; other site 272942007384 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272942007385 active site 272942007386 DNA binding site [nucleotide binding] 272942007387 catalytic site [active] 272942007388 Zinc-finger domain; Region: zf-CHCC; pfam10276 272942007389 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 272942007390 nucleotide binding site/active site [active] 272942007391 HIT family signature motif; other site 272942007392 catalytic residue [active] 272942007393 Core-2/I-Branching enzyme; Region: Branch; pfam02485 272942007394 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 272942007395 Methyltransferase domain; Region: Methyltransf_12; pfam08242 272942007396 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 272942007397 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272942007398 substrate binding site [chemical binding]; other site 272942007399 ATP binding site [chemical binding]; other site 272942007400 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272942007401 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942007402 minor groove reading motif; other site 272942007403 helix-hairpin-helix signature motif; other site 272942007404 substrate binding pocket [chemical binding]; other site 272942007405 active site 272942007406 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 272942007407 Hint domain; Region: Hint_2; pfam13403 272942007408 Helix-turn-helix domain; Region: HTH_18; pfam12833 272942007409 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272942007410 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 272942007411 DNA binding site [nucleotide binding] 272942007412 active site 272942007413 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942007414 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942007415 ligand binding site [chemical binding]; other site 272942007416 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 272942007417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942007418 DNA-binding site [nucleotide binding]; DNA binding site 272942007419 FCD domain; Region: FCD; pfam07729 272942007420 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 272942007421 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942007422 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942007423 ligand binding site [chemical binding]; other site 272942007424 flexible hinge region; other site 272942007425 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 272942007426 putative switch regulator; other site 272942007427 non-specific DNA interactions [nucleotide binding]; other site 272942007428 DNA binding site [nucleotide binding] 272942007429 sequence specific DNA binding site [nucleotide binding]; other site 272942007430 putative cAMP binding site [chemical binding]; other site 272942007431 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 272942007432 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942007433 FeS/SAM binding site; other site 272942007434 HemN C-terminal domain; Region: HemN_C; pfam06969 272942007435 GTPase RsgA; Reviewed; Region: PRK01889 272942007436 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272942007437 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272942007438 GTP/Mg2+ binding site [chemical binding]; other site 272942007439 G4 box; other site 272942007440 G5 box; other site 272942007441 G1 box; other site 272942007442 Switch I region; other site 272942007443 G2 box; other site 272942007444 G3 box; other site 272942007445 Switch II region; other site 272942007446 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942007447 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 272942007448 putative ADP-binding pocket [chemical binding]; other site 272942007449 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 272942007450 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942007451 Walker A/P-loop; other site 272942007452 ATP binding site [chemical binding]; other site 272942007453 Q-loop/lid; other site 272942007454 ABC transporter signature motif; other site 272942007455 Walker B; other site 272942007456 D-loop; other site 272942007457 H-loop/switch region; other site 272942007458 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 272942007459 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272942007460 Walker A/P-loop; other site 272942007461 ATP binding site [chemical binding]; other site 272942007462 Q-loop/lid; other site 272942007463 ABC transporter signature motif; other site 272942007464 Walker B; other site 272942007465 D-loop; other site 272942007466 H-loop/switch region; other site 272942007467 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942007468 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 272942007469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007470 dimer interface [polypeptide binding]; other site 272942007471 conserved gate region; other site 272942007472 putative PBP binding loops; other site 272942007473 ABC-ATPase subunit interface; other site 272942007474 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 272942007475 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007476 dimer interface [polypeptide binding]; other site 272942007477 conserved gate region; other site 272942007478 putative PBP binding loops; other site 272942007479 ABC-ATPase subunit interface; other site 272942007480 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272942007481 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 272942007482 Cytochrome c2 [Energy production and conversion]; Region: COG3474 272942007483 prephenate dehydratase; Provisional; Region: PRK11899 272942007484 Prephenate dehydratase; Region: PDT; pfam00800 272942007485 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 272942007486 putative L-Phe binding site [chemical binding]; other site 272942007487 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 272942007488 hydrophobic ligand binding site; other site 272942007489 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 272942007490 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 272942007491 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 272942007492 putative NADH binding site [chemical binding]; other site 272942007493 putative active site [active] 272942007494 nudix motif; other site 272942007495 putative metal binding site [ion binding]; other site 272942007496 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 272942007497 nucleoside/Zn binding site; other site 272942007498 dimer interface [polypeptide binding]; other site 272942007499 catalytic motif [active] 272942007500 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272942007501 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942007502 RNA binding surface [nucleotide binding]; other site 272942007503 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 272942007504 active site 272942007505 Herpesvirus UL46 protein; Region: Herpes_UL46; cl17368 272942007506 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272942007507 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 272942007508 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 272942007509 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 272942007510 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 272942007511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272942007512 putative substrate binding site [chemical binding]; other site 272942007513 putative ATP binding site [chemical binding]; other site 272942007514 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 272942007515 putative active site [active] 272942007516 dimerization interface [polypeptide binding]; other site 272942007517 putative tRNAtyr binding site [nucleotide binding]; other site 272942007518 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 272942007519 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 272942007520 ATP binding site [chemical binding]; other site 272942007521 Mg++ binding site [ion binding]; other site 272942007522 motif III; other site 272942007523 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942007524 nucleotide binding region [chemical binding]; other site 272942007525 ATP-binding site [chemical binding]; other site 272942007526 thymidine kinase; Provisional; Region: PRK04296 272942007527 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 272942007528 catalytic residues [active] 272942007529 Methyltransferase domain; Region: Methyltransf_12; pfam08242 272942007530 Methyltransferase domain; Region: Methyltransf_23; pfam13489 272942007531 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942007532 PAS domain; Region: PAS_9; pfam13426 272942007533 putative active site [active] 272942007534 heme pocket [chemical binding]; other site 272942007535 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942007536 PAS domain; Region: PAS_9; pfam13426 272942007537 putative active site [active] 272942007538 heme pocket [chemical binding]; other site 272942007539 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272942007540 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942007541 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 272942007542 NMT1/THI5 like; Region: NMT1; pfam09084 272942007543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272942007544 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942007545 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942007546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007547 dimer interface [polypeptide binding]; other site 272942007548 conserved gate region; other site 272942007549 putative PBP binding loops; other site 272942007550 ABC-ATPase subunit interface; other site 272942007551 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942007552 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272942007553 Walker A/P-loop; other site 272942007554 ATP binding site [chemical binding]; other site 272942007555 Q-loop/lid; other site 272942007556 ABC transporter signature motif; other site 272942007557 Walker B; other site 272942007558 D-loop; other site 272942007559 H-loop/switch region; other site 272942007560 phenylhydantoinase; Validated; Region: PRK08323 272942007561 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 272942007562 tetramer interface [polypeptide binding]; other site 272942007563 active site 272942007564 allantoate amidohydrolase; Reviewed; Region: PRK12893 272942007565 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 272942007566 active site 272942007567 metal binding site [ion binding]; metal-binding site 272942007568 dimer interface [polypeptide binding]; other site 272942007569 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942007570 salt bridge; other site 272942007571 non-specific DNA binding site [nucleotide binding]; other site 272942007572 sequence-specific DNA binding site [nucleotide binding]; other site 272942007573 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 272942007574 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 272942007575 homodimer interface [polypeptide binding]; other site 272942007576 active site 272942007577 FMN binding site [chemical binding]; other site 272942007578 substrate binding site [chemical binding]; other site 272942007579 4Fe-4S binding domain; Region: Fer4; pfam00037 272942007580 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 272942007581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942007582 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 272942007583 PUCC protein; Region: PUCC; pfam03209 272942007584 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 272942007585 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 272942007586 Walker A/P-loop; other site 272942007587 ATP binding site [chemical binding]; other site 272942007588 Q-loop/lid; other site 272942007589 ABC transporter signature motif; other site 272942007590 Walker B; other site 272942007591 D-loop; other site 272942007592 H-loop/switch region; other site 272942007593 sulfate transport protein; Provisional; Region: cysT; CHL00187 272942007594 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007595 dimer interface [polypeptide binding]; other site 272942007596 conserved gate region; other site 272942007597 putative PBP binding loops; other site 272942007598 ABC-ATPase subunit interface; other site 272942007599 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272942007600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942007601 dimer interface [polypeptide binding]; other site 272942007602 conserved gate region; other site 272942007603 putative PBP binding loops; other site 272942007604 ABC-ATPase subunit interface; other site 272942007605 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272942007606 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 272942007607 dimer interface [polypeptide binding]; other site 272942007608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007609 catalytic residue [active] 272942007610 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 272942007611 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 272942007612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007613 catalytic residue [active] 272942007614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942007615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007616 metal binding site [ion binding]; metal-binding site 272942007617 active site 272942007618 I-site; other site 272942007619 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942007620 PAS fold; Region: PAS_3; pfam08447 272942007621 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942007622 PAS fold; Region: PAS_3; pfam08447 272942007623 putative active site [active] 272942007624 heme pocket [chemical binding]; other site 272942007625 PAS domain S-box; Region: sensory_box; TIGR00229 272942007626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007627 metal binding site [ion binding]; metal-binding site 272942007628 active site 272942007629 I-site; other site 272942007630 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942007631 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 272942007632 active site 272942007633 P-loop; other site 272942007634 phosphorylation site [posttranslational modification] 272942007635 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 272942007636 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 272942007637 active site 272942007638 P-loop; other site 272942007639 phosphorylation site [posttranslational modification] 272942007640 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 272942007641 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272942007642 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272942007643 putative substrate binding site [chemical binding]; other site 272942007644 putative ATP binding site [chemical binding]; other site 272942007645 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272942007646 active site 272942007647 phosphorylation site [posttranslational modification] 272942007648 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272942007649 dimerization domain swap beta strand [polypeptide binding]; other site 272942007650 regulatory protein interface [polypeptide binding]; other site 272942007651 active site 272942007652 regulatory phosphorylation site [posttranslational modification]; other site 272942007653 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272942007654 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272942007655 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272942007656 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272942007657 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942007658 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 272942007659 HAMP domain; Region: HAMP; pfam00672 272942007660 dimerization interface [polypeptide binding]; other site 272942007661 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942007662 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942007663 dimer interface [polypeptide binding]; other site 272942007664 phosphorylation site [posttranslational modification] 272942007665 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942007666 ATP binding site [chemical binding]; other site 272942007667 Mg2+ binding site [ion binding]; other site 272942007668 G-X-G motif; other site 272942007669 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942007670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942007671 active site 272942007672 phosphorylation site [posttranslational modification] 272942007673 intermolecular recognition site; other site 272942007674 dimerization interface [polypeptide binding]; other site 272942007675 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272942007676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942007677 active site 272942007678 phosphorylation site [posttranslational modification] 272942007679 intermolecular recognition site; other site 272942007680 dimerization interface [polypeptide binding]; other site 272942007681 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942007682 DNA binding site [nucleotide binding] 272942007683 Domain of unknown function (DUF329); Region: DUF329; pfam03884 272942007684 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 272942007685 RNA binding site [nucleotide binding]; other site 272942007686 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 272942007687 Maf-like protein; Region: Maf; pfam02545 272942007688 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272942007689 active site 272942007690 dimer interface [polypeptide binding]; other site 272942007691 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 272942007692 rRNA binding site [nucleotide binding]; other site 272942007693 predicted 30S ribosome binding site; other site 272942007694 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 272942007695 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272942007696 putative active site [active] 272942007697 catalytic triad [active] 272942007698 putative dimer interface [polypeptide binding]; other site 272942007699 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942007700 Coenzyme A binding pocket [chemical binding]; other site 272942007701 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272942007702 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 272942007703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007704 NAD(P) binding site [chemical binding]; other site 272942007705 active site 272942007706 Predicted transcriptional regulators [Transcription]; Region: COG1733 272942007707 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 272942007708 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 272942007709 Low molecular weight phosphatase family; Region: LMWPc; cl00105 272942007710 active site 272942007711 hypothetical protein; Provisional; Region: PRK02853 272942007712 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 272942007713 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 272942007714 NAD binding site [chemical binding]; other site 272942007715 dimerization interface [polypeptide binding]; other site 272942007716 product binding site; other site 272942007717 substrate binding site [chemical binding]; other site 272942007718 zinc binding site [ion binding]; other site 272942007719 catalytic residues [active] 272942007720 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 272942007721 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 272942007722 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 272942007723 hinge; other site 272942007724 active site 272942007725 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 272942007726 active site 272942007727 NTP binding site [chemical binding]; other site 272942007728 nucleic acid binding site [nucleotide binding]; other site 272942007729 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942007730 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272942007731 catalytic residues [active] 272942007732 catalytic nucleophile [active] 272942007733 Recombinase; Region: Recombinase; pfam07508 272942007734 BRO family, N-terminal domain; Region: Bro-N; cl10591 272942007735 Prophage antirepressor [Transcription]; Region: COG3617 272942007736 BRO family, N-terminal domain; Region: Bro-N; smart01040 272942007737 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 272942007738 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942007739 active site 272942007740 DNA binding site [nucleotide binding] 272942007741 Int/Topo IB signature motif; other site 272942007742 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 272942007743 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942007744 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942007745 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942007746 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272942007747 HAMP domain; Region: HAMP; pfam00672 272942007748 dimerization interface [polypeptide binding]; other site 272942007749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942007750 ATP binding site [chemical binding]; other site 272942007751 Mg2+ binding site [ion binding]; other site 272942007752 G-X-G motif; other site 272942007753 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272942007754 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272942007755 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942007756 Walker A motif; other site 272942007757 ATP binding site [chemical binding]; other site 272942007758 Walker B motif; other site 272942007759 arginine finger; other site 272942007760 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272942007761 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272942007762 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942007763 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942007764 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942007765 ligand binding site [chemical binding]; other site 272942007766 flexible hinge region; other site 272942007767 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 272942007768 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942007769 substrate binding site [chemical binding]; other site 272942007770 oxyanion hole (OAH) forming residues; other site 272942007771 trimer interface [polypeptide binding]; other site 272942007772 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272942007773 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272942007774 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 272942007775 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 272942007776 Na binding site [ion binding]; other site 272942007777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942007778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942007779 dimer interface [polypeptide binding]; other site 272942007780 phosphorylation site [posttranslational modification] 272942007781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942007782 ATP binding site [chemical binding]; other site 272942007783 Mg2+ binding site [ion binding]; other site 272942007784 G-X-G motif; other site 272942007785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942007786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942007787 active site 272942007788 phosphorylation site [posttranslational modification] 272942007789 intermolecular recognition site; other site 272942007790 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942007791 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942007792 non-specific DNA binding site [nucleotide binding]; other site 272942007793 salt bridge; other site 272942007794 sequence-specific DNA binding site [nucleotide binding]; other site 272942007795 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942007796 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 272942007797 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942007798 inhibitor-cofactor binding pocket; inhibition site 272942007799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007800 catalytic residue [active] 272942007801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942007802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942007803 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 272942007804 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272942007805 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 272942007806 carboxyltransferase (CT) interaction site; other site 272942007807 biotinylation site [posttranslational modification]; other site 272942007808 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272942007809 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942007810 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272942007811 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272942007812 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942007813 S-adenosylmethionine binding site [chemical binding]; other site 272942007814 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 272942007815 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 272942007816 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 272942007817 mce related protein; Region: MCE; pfam02470 272942007818 NADH dehydrogenase; Validated; Region: PRK08183 272942007819 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272942007820 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 272942007821 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942007822 Walker A motif; other site 272942007823 ATP binding site [chemical binding]; other site 272942007824 Walker B motif; other site 272942007825 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 272942007826 Clp protease; Region: CLP_protease; pfam00574 272942007827 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272942007828 oligomer interface [polypeptide binding]; other site 272942007829 active site residues [active] 272942007830 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942007831 dimerization interface [polypeptide binding]; other site 272942007832 PAS domain; Region: PAS_9; pfam13426 272942007833 PAS domain; Region: PAS_9; pfam13426 272942007834 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942007835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942007836 dimer interface [polypeptide binding]; other site 272942007837 putative CheW interface [polypeptide binding]; other site 272942007838 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 272942007839 active site 272942007840 homotetramer interface [polypeptide binding]; other site 272942007841 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 272942007842 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 272942007843 active site 272942007844 catalytic site [active] 272942007845 tetramer interface [polypeptide binding]; other site 272942007846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 272942007847 hypothetical protein; Provisional; Region: PRK11171 272942007848 Cupin domain; Region: Cupin_2; cl17218 272942007849 Cupin domain; Region: Cupin_2; pfam07883 272942007850 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 272942007851 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 272942007852 MOFRL family; Region: MOFRL; pfam05161 272942007853 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 272942007854 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272942007855 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 272942007856 active site 272942007857 metal binding site [ion binding]; metal-binding site 272942007858 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272942007859 Protein of unknown function (DUF952); Region: DUF952; pfam06108 272942007860 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 272942007861 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 272942007862 quinone interaction residues [chemical binding]; other site 272942007863 active site 272942007864 catalytic residues [active] 272942007865 FMN binding site [chemical binding]; other site 272942007866 substrate binding site [chemical binding]; other site 272942007867 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942007868 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 272942007869 active site 272942007870 CoA binding site [chemical binding]; other site 272942007871 acyl-activating enzyme (AAE) consensus motif; other site 272942007872 AMP binding site [chemical binding]; other site 272942007873 acetate binding site [chemical binding]; other site 272942007874 putative transporter; Provisional; Region: PRK11660 272942007875 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 272942007876 Sulfate transporter family; Region: Sulfate_transp; pfam00916 272942007877 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 272942007878 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 272942007879 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 272942007880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942007881 active site 272942007882 nucleotide binding site [chemical binding]; other site 272942007883 HIGH motif; other site 272942007884 KMSKS motif; other site 272942007885 tellurite resistance protein terB; Region: terB; cd07176 272942007886 putative metal binding site [ion binding]; other site 272942007887 Cysteine-rich small domain; Region: zf-like; cl00946 272942007888 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 272942007889 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 272942007890 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 272942007891 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272942007892 active site 272942007893 (T/H)XGH motif; other site 272942007894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942007895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007896 metal binding site [ion binding]; metal-binding site 272942007897 active site 272942007898 I-site; other site 272942007899 Heme NO binding; Region: HNOB; pfam07700 272942007900 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 272942007901 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942007902 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942007903 motif II; other site 272942007904 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 272942007905 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 272942007906 response regulator PleD; Reviewed; Region: pleD; PRK09581 272942007907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942007908 active site 272942007909 phosphorylation site [posttranslational modification] 272942007910 intermolecular recognition site; other site 272942007911 dimerization interface [polypeptide binding]; other site 272942007912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007913 metal binding site [ion binding]; metal-binding site 272942007914 active site 272942007915 I-site; other site 272942007916 Heavy-metal resistance; Region: Metal_resist; pfam13801 272942007917 RNA polymerase sigma factor; Provisional; Region: PRK12524 272942007918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942007919 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 272942007920 DNA binding residues [nucleotide binding] 272942007921 EF-hand domain pair; Region: EF_hand_5; pfam13499 272942007922 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 272942007923 Ca2+ binding site [ion binding]; other site 272942007924 EF-hand domain pair; Region: EF_hand_5; pfam13499 272942007925 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 272942007926 Ca2+ binding site [ion binding]; other site 272942007927 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272942007928 nudix motif; other site 272942007929 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 272942007930 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272942007931 active site 272942007932 catalytic tetrad [active] 272942007933 hypothetical protein; Provisional; Region: PRK07546 272942007934 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 272942007935 substrate-cofactor binding pocket; other site 272942007936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007937 aminodeoxychorismate synthase; Provisional; Region: PRK07508 272942007938 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272942007939 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272942007940 CoA-transferase family III; Region: CoA_transf_3; pfam02515 272942007941 Protein of unknown function (DUF461); Region: DUF461; pfam04314 272942007942 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 272942007943 Proline dehydrogenase; Region: Pro_dh; pfam01619 272942007944 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942007945 NAD(P) binding site [chemical binding]; other site 272942007946 catalytic residues [active] 272942007947 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942007948 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 272942007949 putative DNA binding site [nucleotide binding]; other site 272942007950 putative Zn2+ binding site [ion binding]; other site 272942007951 AsnC family; Region: AsnC_trans_reg; pfam01037 272942007952 selenophosphate synthetase; Provisional; Region: PRK00943 272942007953 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 272942007954 dimerization interface [polypeptide binding]; other site 272942007955 putative ATP binding site [chemical binding]; other site 272942007956 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272942007957 Ligand Binding Site [chemical binding]; other site 272942007958 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272942007959 Ligand Binding Site [chemical binding]; other site 272942007960 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 272942007961 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 272942007962 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272942007963 nucleotide binding site [chemical binding]; other site 272942007964 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 272942007965 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 272942007966 PYR/PP interface [polypeptide binding]; other site 272942007967 dimer interface [polypeptide binding]; other site 272942007968 TPP binding site [chemical binding]; other site 272942007969 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942007970 transketolase; Reviewed; Region: PRK05899 272942007971 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 272942007972 TPP-binding site [chemical binding]; other site 272942007973 dimer interface [polypeptide binding]; other site 272942007974 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 272942007975 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 272942007976 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272942007977 substrate binding site [chemical binding]; other site 272942007978 trimer interface [polypeptide binding]; other site 272942007979 Mn binding site [ion binding]; other site 272942007980 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272942007981 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 272942007982 ligand binding site [chemical binding]; other site 272942007983 dimerization interface [polypeptide binding]; other site 272942007984 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 272942007985 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272942007986 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942007987 Walker A/P-loop; other site 272942007988 ATP binding site [chemical binding]; other site 272942007989 Q-loop/lid; other site 272942007990 ABC transporter signature motif; other site 272942007991 Walker B; other site 272942007992 D-loop; other site 272942007993 H-loop/switch region; other site 272942007994 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272942007995 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942007996 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942007997 TM-ABC transporter signature motif; other site 272942007998 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272942007999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942008000 DNA-binding site [nucleotide binding]; DNA binding site 272942008001 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 272942008002 short chain dehydrogenase; Validated; Region: PRK08324 272942008003 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 272942008004 active site 272942008005 Zn2+ binding site [ion binding]; other site 272942008006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008007 NAD(P) binding site [chemical binding]; other site 272942008008 active site 272942008009 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942008010 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 272942008011 non-specific DNA interactions [nucleotide binding]; other site 272942008012 DNA binding site [nucleotide binding] 272942008013 sequence specific DNA binding site [nucleotide binding]; other site 272942008014 putative cAMP binding site [chemical binding]; other site 272942008015 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942008016 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 272942008017 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 272942008018 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942008019 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272942008020 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 272942008021 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272942008022 NAD binding site [chemical binding]; other site 272942008023 homotetramer interface [polypeptide binding]; other site 272942008024 homodimer interface [polypeptide binding]; other site 272942008025 substrate binding site [chemical binding]; other site 272942008026 active site 272942008027 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 272942008028 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 272942008029 dimer interface [polypeptide binding]; other site 272942008030 active site 272942008031 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 272942008032 active site 1 [active] 272942008033 dimer interface [polypeptide binding]; other site 272942008034 active site 2 [active] 272942008035 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272942008036 metal binding site 2 [ion binding]; metal-binding site 272942008037 putative DNA binding helix; other site 272942008038 metal binding site 1 [ion binding]; metal-binding site 272942008039 dimer interface [polypeptide binding]; other site 272942008040 structural Zn2+ binding site [ion binding]; other site 272942008041 elongation factor P; Validated; Region: PRK00529 272942008042 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272942008043 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 272942008044 RNA binding site [nucleotide binding]; other site 272942008045 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 272942008046 RNA binding site [nucleotide binding]; other site 272942008047 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 272942008048 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 272942008049 motif 1; other site 272942008050 dimer interface [polypeptide binding]; other site 272942008051 active site 272942008052 motif 2; other site 272942008053 motif 3; other site 272942008054 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 272942008055 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 272942008056 Beta-lactamase; Region: Beta-lactamase; pfam00144 272942008057 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272942008058 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 272942008059 Uncharacterized conserved protein [Function unknown]; Region: COG2938 272942008060 aspartate aminotransferase; Provisional; Region: PRK05764 272942008061 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942008062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008063 homodimer interface [polypeptide binding]; other site 272942008064 catalytic residue [active] 272942008065 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272942008066 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 272942008067 multidrug efflux protein; Reviewed; Region: PRK01766 272942008068 cation binding site [ion binding]; other site 272942008069 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 272942008070 Cytochrome C' Region: Cytochrom_C_2; pfam01322 272942008071 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 272942008072 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 272942008073 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942008074 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272942008075 putative C-terminal domain interface [polypeptide binding]; other site 272942008076 putative GSH binding site (G-site) [chemical binding]; other site 272942008077 putative dimer interface [polypeptide binding]; other site 272942008078 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272942008079 N-terminal domain interface [polypeptide binding]; other site 272942008080 dimer interface [polypeptide binding]; other site 272942008081 substrate binding pocket (H-site) [chemical binding]; other site 272942008082 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272942008083 PCRF domain; Region: PCRF; pfam03462 272942008084 RF-1 domain; Region: RF-1; pfam00472 272942008085 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 272942008086 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942008087 S-adenosylmethionine binding site [chemical binding]; other site 272942008088 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 272942008089 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 272942008090 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 272942008091 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 272942008092 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 272942008093 SurA N-terminal domain; Region: SurA_N; pfam09312 272942008094 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 272942008095 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 272942008096 Organic solvent tolerance protein; Region: OstA_C; pfam04453 272942008097 Predicted permeases [General function prediction only]; Region: COG0795 272942008098 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272942008099 Predicted permeases [General function prediction only]; Region: COG0795 272942008100 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272942008101 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272942008102 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272942008103 interface (dimer of trimers) [polypeptide binding]; other site 272942008104 Substrate-binding/catalytic site; other site 272942008105 Zn-binding sites [ion binding]; other site 272942008106 DNA polymerase III subunit chi; Validated; Region: PRK05728 272942008107 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942008108 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 272942008109 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 272942008110 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942008111 dimer interface [polypeptide binding]; other site 272942008112 conserved gate region; other site 272942008113 putative PBP binding loops; other site 272942008114 ABC-ATPase subunit interface; other site 272942008115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272942008116 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 272942008117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942008118 Walker A/P-loop; other site 272942008119 ATP binding site [chemical binding]; other site 272942008120 Q-loop/lid; other site 272942008121 ABC transporter signature motif; other site 272942008122 Walker B; other site 272942008123 D-loop; other site 272942008124 H-loop/switch region; other site 272942008125 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 272942008126 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 272942008127 Cytochrome C' Region: Cytochrom_C_2; cl01610 272942008128 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 272942008129 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272942008130 NlpC/P60 family; Region: NLPC_P60; cl17555 272942008131 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 272942008132 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272942008133 interface (dimer of trimers) [polypeptide binding]; other site 272942008134 Substrate-binding/catalytic site; other site 272942008135 Zn-binding sites [ion binding]; other site 272942008136 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 272942008137 active site clefts [active] 272942008138 zinc binding site [ion binding]; other site 272942008139 dimer interface [polypeptide binding]; other site 272942008140 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 272942008141 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 272942008142 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 272942008143 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 272942008144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942008145 putative substrate translocation pore; other site 272942008146 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 272942008147 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 272942008148 Z1 domain; Region: Z1; pfam10593 272942008149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008150 ATP binding site [chemical binding]; other site 272942008151 Mg2+ binding site [ion binding]; other site 272942008152 G-X-G motif; other site 272942008153 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272942008154 cofactor binding site; other site 272942008155 DNA binding site [nucleotide binding] 272942008156 substrate interaction site [chemical binding]; other site 272942008157 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 272942008158 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942008159 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272942008160 catalytic residues [active] 272942008161 catalytic nucleophile [active] 272942008162 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942008163 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942008164 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942008165 Synaptic Site I dimer interface [polypeptide binding]; other site 272942008166 DNA binding site [nucleotide binding] 272942008167 Recombinase; Region: Recombinase; pfam07508 272942008168 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272942008169 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 272942008170 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272942008171 AAA domain; Region: AAA_24; pfam13479 272942008172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942008173 Walker A motif; other site 272942008174 Walker A/P-loop; other site 272942008175 ATP binding site [chemical binding]; other site 272942008176 ATP binding site [chemical binding]; other site 272942008177 Q-loop/lid; other site 272942008178 ABC transporter signature motif; other site 272942008179 D-loop; other site 272942008180 H-loop/switch region; other site 272942008181 AAA domain; Region: AAA_30; pfam13604 272942008182 Family description; Region: UvrD_C_2; pfam13538 272942008183 Toprim domain; Region: Toprim_3; pfam13362 272942008184 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 272942008185 Virulence-associated protein E; Region: VirE; pfam05272 272942008186 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942008187 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942008188 potential frameshift: common BLAST hit: gi|209883964|ref|YP_002287821.1| ParB domain protein nuclease 272942008189 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 272942008190 ParB-like nuclease domain; Region: ParBc; pfam02195 272942008191 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272942008192 DNA methylase; Region: N6_N4_Mtase; cl17433 272942008193 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272942008194 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272942008195 cofactor binding site; other site 272942008196 DNA binding site [nucleotide binding] 272942008197 substrate interaction site [chemical binding]; other site 272942008198 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 272942008199 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272942008200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942008201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942008202 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942008203 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942008204 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942008205 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272942008206 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 272942008207 Protein of unknown function (DUF533); Region: DUF533; pfam04391 272942008208 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 272942008209 putative metal binding site [ion binding]; other site 272942008210 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 272942008211 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 272942008212 amidase catalytic site [active] 272942008213 Zn binding residues [ion binding]; other site 272942008214 substrate binding site [chemical binding]; other site 272942008215 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272942008216 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 272942008217 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 272942008218 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942008219 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 272942008220 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 272942008221 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942008222 Walker A motif; other site 272942008223 ATP binding site [chemical binding]; other site 272942008224 Walker B motif; other site 272942008225 arginine finger; other site 272942008226 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272942008227 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 272942008228 hypothetical protein; Validated; Region: PRK00153 272942008229 recombination protein RecR; Reviewed; Region: recR; PRK00076 272942008230 RecR protein; Region: RecR; pfam02132 272942008231 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 272942008232 putative active site [active] 272942008233 putative metal-binding site [ion binding]; other site 272942008234 tetramer interface [polypeptide binding]; other site 272942008235 TfoX N-terminal domain; Region: TfoX_N; pfam04993 272942008236 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 272942008237 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942008238 C-terminal domain interface [polypeptide binding]; other site 272942008239 GSH binding site (G-site) [chemical binding]; other site 272942008240 dimer interface [polypeptide binding]; other site 272942008241 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 272942008242 N-terminal domain interface [polypeptide binding]; other site 272942008243 dimer interface [polypeptide binding]; other site 272942008244 substrate binding pocket (H-site) [chemical binding]; other site 272942008245 epoxyqueuosine reductase; Region: TIGR00276 272942008246 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 272942008247 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942008248 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 272942008249 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 272942008250 homodimer interface [polypeptide binding]; other site 272942008251 substrate-cofactor binding pocket; other site 272942008252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008253 catalytic residue [active] 272942008254 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272942008255 MarR family; Region: MarR_2; pfam12802 272942008256 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272942008257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008258 active site 272942008259 phosphorylation site [posttranslational modification] 272942008260 intermolecular recognition site; other site 272942008261 dimerization interface [polypeptide binding]; other site 272942008262 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942008263 DNA binding site [nucleotide binding] 272942008264 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 272942008265 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 272942008266 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 272942008267 [2Fe-2S] cluster binding site [ion binding]; other site 272942008268 cytochrome b; Provisional; Region: CYTB; MTH00191 272942008269 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 272942008270 intrachain domain interface; other site 272942008271 interchain domain interface [polypeptide binding]; other site 272942008272 heme bH binding site [chemical binding]; other site 272942008273 Qi binding site; other site 272942008274 heme bL binding site [chemical binding]; other site 272942008275 Qo binding site; other site 272942008276 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 272942008277 interchain domain interface [polypeptide binding]; other site 272942008278 intrachain domain interface; other site 272942008279 Qi binding site; other site 272942008280 Qo binding site; other site 272942008281 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 272942008282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942008283 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942008284 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 272942008285 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 272942008286 putative metal binding site [ion binding]; other site 272942008287 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 272942008288 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272942008289 Walker A/P-loop; other site 272942008290 ATP binding site [chemical binding]; other site 272942008291 Q-loop/lid; other site 272942008292 ABC transporter signature motif; other site 272942008293 Walker B; other site 272942008294 D-loop; other site 272942008295 H-loop/switch region; other site 272942008296 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942008297 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942008298 substrate binding pocket [chemical binding]; other site 272942008299 membrane-bound complex binding site; other site 272942008300 hinge residues; other site 272942008301 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942008302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942008303 ABC-ATPase subunit interface; other site 272942008304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942008305 dimer interface [polypeptide binding]; other site 272942008306 conserved gate region; other site 272942008307 putative PBP binding loops; other site 272942008308 ABC-ATPase subunit interface; other site 272942008309 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942008310 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942008311 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272942008312 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272942008313 catalytic triad [active] 272942008314 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942008315 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942008316 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272942008317 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942008318 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942008319 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942008320 catalytic residue [active] 272942008321 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 272942008322 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272942008323 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 272942008324 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 272942008325 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 272942008326 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 272942008327 homodimer interface [polypeptide binding]; other site 272942008328 substrate-cofactor binding pocket; other site 272942008329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008330 catalytic residue [active] 272942008331 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 272942008332 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 272942008333 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 272942008334 TrkA-N domain; Region: TrkA_N; pfam02254 272942008335 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 272942008336 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272942008337 4Fe-4S binding domain; Region: Fer4; pfam00037 272942008338 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 272942008339 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942008340 RNA binding surface [nucleotide binding]; other site 272942008341 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942008342 nucleotide binding region [chemical binding]; other site 272942008343 ATP-binding site [chemical binding]; other site 272942008344 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 272942008345 binding surface 272942008346 TPR repeat; Region: TPR_11; pfam13414 272942008347 TPR motif; other site 272942008348 SCP-2 sterol transfer family; Region: SCP2; pfam02036 272942008349 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 272942008350 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 272942008351 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 272942008352 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 272942008353 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272942008354 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942008355 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272942008356 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 272942008357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 272942008358 Uncharacterized conserved protein [Function unknown]; Region: COG2308 272942008359 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 272942008360 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 272942008361 active site 272942008362 Zn binding site [ion binding]; other site 272942008363 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 272942008364 active site 272942008365 dimer interface [polypeptide binding]; other site 272942008366 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 272942008367 Hint domain; Region: Hint_2; pfam13403 272942008368 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272942008369 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 272942008370 Uncharacterized conserved protein [Function unknown]; Region: COG1565 272942008371 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 272942008372 Membrane fusogenic activity; Region: BMFP; pfam04380 272942008373 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272942008374 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942008375 RNA binding surface [nucleotide binding]; other site 272942008376 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272942008377 active site 272942008378 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 272942008379 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272942008380 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942008381 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272942008382 DNA binding residues [nucleotide binding] 272942008383 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272942008384 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 272942008385 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 272942008386 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942008387 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942008388 putative DNA binding site [nucleotide binding]; other site 272942008389 putative Zn2+ binding site [ion binding]; other site 272942008390 AsnC family; Region: AsnC_trans_reg; pfam01037 272942008391 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272942008392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272942008393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942008394 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 272942008395 ATP-sulfurylase; Region: ATPS; cd00517 272942008396 active site 272942008397 HXXH motif; other site 272942008398 flexible loop; other site 272942008399 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 272942008400 ligand-binding site [chemical binding]; other site 272942008401 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 272942008402 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 272942008403 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 272942008404 putative dimer interface [polypeptide binding]; other site 272942008405 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 272942008406 AIR carboxylase; Region: AIRC; pfam00731 272942008407 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 272942008408 ATP-grasp domain; Region: ATP-grasp; pfam02222 272942008409 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 272942008410 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272942008411 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272942008412 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942008413 active site 272942008414 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 272942008415 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 272942008416 putative catalytic residue [active] 272942008417 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942008418 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 272942008419 catalytic site [active] 272942008420 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272942008421 Class II fumarases; Region: Fumarase_classII; cd01362 272942008422 active site 272942008423 tetramer interface [polypeptide binding]; other site 272942008424 Stringent starvation protein B; Region: SspB; pfam04386 272942008425 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272942008426 Domain of unknown function DUF21; Region: DUF21; pfam01595 272942008427 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272942008428 Transporter associated domain; Region: CorC_HlyC; smart01091 272942008429 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 272942008430 putative acyl-acceptor binding pocket; other site 272942008431 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272942008432 regulatory protein interface [polypeptide binding]; other site 272942008433 active site 272942008434 regulatory phosphorylation site [posttranslational modification]; other site 272942008435 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 272942008436 active pocket/dimerization site; other site 272942008437 active site 272942008438 phosphorylation site [posttranslational modification] 272942008439 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 272942008440 AAA domain; Region: AAA_18; pfam13238 272942008441 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 272942008442 Hpr binding site; other site 272942008443 active site 272942008444 homohexamer subunit interaction site [polypeptide binding]; other site 272942008445 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 272942008446 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 272942008447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942008448 HAMP domain; Region: HAMP; pfam00672 272942008449 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942008450 dimer interface [polypeptide binding]; other site 272942008451 phosphorylation site [posttranslational modification] 272942008452 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008453 ATP binding site [chemical binding]; other site 272942008454 Mg2+ binding site [ion binding]; other site 272942008455 G-X-G motif; other site 272942008456 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942008457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008458 active site 272942008459 phosphorylation site [posttranslational modification] 272942008460 intermolecular recognition site; other site 272942008461 dimerization interface [polypeptide binding]; other site 272942008462 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942008463 DNA binding site [nucleotide binding] 272942008464 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 272942008465 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 272942008466 active site 272942008467 substrate-binding site [chemical binding]; other site 272942008468 metal-binding site [ion binding] 272942008469 ATP binding site [chemical binding]; other site 272942008470 ribonuclease R; Region: RNase_R; TIGR02063 272942008471 RNB domain; Region: RNB; pfam00773 272942008472 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 272942008473 RNA binding site [nucleotide binding]; other site 272942008474 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 272942008475 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272942008476 GTP binding site; other site 272942008477 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 272942008478 trimer interface [polypeptide binding]; other site 272942008479 dimer interface [polypeptide binding]; other site 272942008480 putative active site [active] 272942008481 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272942008482 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 272942008483 ATP binding site [chemical binding]; other site 272942008484 substrate interface [chemical binding]; other site 272942008485 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272942008486 MoaE interaction surface [polypeptide binding]; other site 272942008487 MoeB interaction surface [polypeptide binding]; other site 272942008488 thiocarboxylated glycine; other site 272942008489 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 272942008490 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942008491 FeS/SAM binding site; other site 272942008492 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272942008493 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 272942008494 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 272942008495 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 272942008496 molybdopterin cofactor binding site [chemical binding]; other site 272942008497 substrate binding site [chemical binding]; other site 272942008498 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 272942008499 molybdopterin cofactor binding site; other site 272942008500 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 272942008501 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 272942008502 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 272942008503 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 272942008504 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008505 active site 272942008506 phosphorylation site [posttranslational modification] 272942008507 intermolecular recognition site; other site 272942008508 dimerization interface [polypeptide binding]; other site 272942008509 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942008510 DNA binding site [nucleotide binding] 272942008511 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942008512 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942008513 dimer interface [polypeptide binding]; other site 272942008514 phosphorylation site [posttranslational modification] 272942008515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008516 ATP binding site [chemical binding]; other site 272942008517 Mg2+ binding site [ion binding]; other site 272942008518 G-X-G motif; other site 272942008519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008520 Response regulator receiver domain; Region: Response_reg; pfam00072 272942008521 active site 272942008522 phosphorylation site [posttranslational modification] 272942008523 intermolecular recognition site; other site 272942008524 dimerization interface [polypeptide binding]; other site 272942008525 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 272942008526 substrate binding site [chemical binding]; other site 272942008527 multimerization interface [polypeptide binding]; other site 272942008528 ATP binding site [chemical binding]; other site 272942008529 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 272942008530 thiamine phosphate binding site [chemical binding]; other site 272942008531 active site 272942008532 pyrophosphate binding site [ion binding]; other site 272942008533 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 272942008534 dimer interface [polypeptide binding]; other site 272942008535 substrate binding site [chemical binding]; other site 272942008536 ATP binding site [chemical binding]; other site 272942008537 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272942008538 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272942008539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942008540 Walker A/P-loop; other site 272942008541 ATP binding site [chemical binding]; other site 272942008542 Q-loop/lid; other site 272942008543 ABC transporter signature motif; other site 272942008544 Walker B; other site 272942008545 D-loop; other site 272942008546 H-loop/switch region; other site 272942008547 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 272942008548 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942008549 PAS domain; Region: PAS_9; pfam13426 272942008550 putative active site [active] 272942008551 heme pocket [chemical binding]; other site 272942008552 PAS fold; Region: PAS_4; pfam08448 272942008553 PAS fold; Region: PAS_3; pfam08447 272942008554 PAS fold; Region: PAS_3; pfam08447 272942008555 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942008556 putative active site [active] 272942008557 heme pocket [chemical binding]; other site 272942008558 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942008559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942008560 metal binding site [ion binding]; metal-binding site 272942008561 active site 272942008562 I-site; other site 272942008563 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942008564 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942008565 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 272942008566 active site 272942008567 CoA binding site [chemical binding]; other site 272942008568 acyl-activating enzyme (AAE) consensus motif; other site 272942008569 AMP binding site [chemical binding]; other site 272942008570 acetate binding site [chemical binding]; other site 272942008571 Protein of unknown function, DUF485; Region: DUF485; pfam04341 272942008572 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942008573 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 272942008574 Na binding site [ion binding]; other site 272942008575 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942008576 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942008577 ligand binding site [chemical binding]; other site 272942008578 flexible hinge region; other site 272942008579 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942008580 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942008581 metal binding triad; other site 272942008582 Response regulator receiver domain; Region: Response_reg; pfam00072 272942008583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008584 active site 272942008585 phosphorylation site [posttranslational modification] 272942008586 intermolecular recognition site; other site 272942008587 dimerization interface [polypeptide binding]; other site 272942008588 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272942008589 active site 272942008590 catalytic site [active] 272942008591 substrate binding site [chemical binding]; other site 272942008592 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 272942008593 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942008594 FeS/SAM binding site; other site 272942008595 Pyruvate formate lyase 1; Region: PFL1; cd01678 272942008596 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 272942008597 coenzyme A binding site [chemical binding]; other site 272942008598 active site 272942008599 catalytic residues [active] 272942008600 glycine loop; other site 272942008601 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272942008602 active site 272942008603 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 272942008604 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 272942008605 Cysteine-rich domain; Region: CCG; pfam02754 272942008606 Cysteine-rich domain; Region: CCG; pfam02754 272942008607 FAD binding domain; Region: FAD_binding_4; pfam01565 272942008608 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 272942008609 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 272942008610 FAD binding domain; Region: FAD_binding_4; pfam01565 272942008611 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272942008612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942008613 Walker A/P-loop; other site 272942008614 ATP binding site [chemical binding]; other site 272942008615 Q-loop/lid; other site 272942008616 ABC transporter signature motif; other site 272942008617 Walker B; other site 272942008618 D-loop; other site 272942008619 H-loop/switch region; other site 272942008620 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 272942008621 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 272942008622 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 272942008623 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 272942008624 putative active site; other site 272942008625 catalytic residue [active] 272942008626 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 272942008627 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 272942008628 ligand binding site [chemical binding]; other site 272942008629 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942008630 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942008631 TM-ABC transporter signature motif; other site 272942008632 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942008633 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272942008634 TM-ABC transporter signature motif; other site 272942008635 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272942008636 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942008637 Walker A/P-loop; other site 272942008638 ATP binding site [chemical binding]; other site 272942008639 Q-loop/lid; other site 272942008640 ABC transporter signature motif; other site 272942008641 Walker B; other site 272942008642 D-loop; other site 272942008643 H-loop/switch region; other site 272942008644 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272942008645 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272942008646 phosphate binding site [ion binding]; other site 272942008647 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272942008648 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942008649 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 272942008650 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942008651 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 272942008652 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272942008653 nucleotide binding site [chemical binding]; other site 272942008654 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272942008655 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942008656 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272942008657 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 272942008658 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272942008659 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942008660 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942008661 sequence-specific DNA binding site [nucleotide binding]; other site 272942008662 salt bridge; other site 272942008663 Cupin domain; Region: Cupin_2; pfam07883 272942008664 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942008665 dimerization interface [polypeptide binding]; other site 272942008666 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942008667 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942008668 dimer interface [polypeptide binding]; other site 272942008669 putative CheW interface [polypeptide binding]; other site 272942008670 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 272942008671 Protein of unknown function (DUF982); Region: DUF982; pfam06169 272942008672 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942008673 DNA-binding site [nucleotide binding]; DNA binding site 272942008674 RNA-binding motif; other site 272942008675 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942008676 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942008677 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272942008678 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942008679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008680 active site 272942008681 phosphorylation site [posttranslational modification] 272942008682 intermolecular recognition site; other site 272942008683 dimerization interface [polypeptide binding]; other site 272942008684 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942008685 DNA binding site [nucleotide binding] 272942008686 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272942008687 dimerization interface [polypeptide binding]; other site 272942008688 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942008689 dimer interface [polypeptide binding]; other site 272942008690 phosphorylation site [posttranslational modification] 272942008691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008692 ATP binding site [chemical binding]; other site 272942008693 Mg2+ binding site [ion binding]; other site 272942008694 G-X-G motif; other site 272942008695 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 272942008696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942008697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942008698 Walker A/P-loop; other site 272942008699 ATP binding site [chemical binding]; other site 272942008700 Q-loop/lid; other site 272942008701 ABC transporter signature motif; other site 272942008702 Walker B; other site 272942008703 D-loop; other site 272942008704 H-loop/switch region; other site 272942008705 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942008706 Putative phage tail protein; Region: Phage-tail_3; pfam13550 272942008707 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 272942008708 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 272942008709 Phage-related minor tail protein [Function unknown]; Region: COG5281 272942008710 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 272942008711 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 272942008712 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 272942008713 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942008714 non-specific DNA binding site [nucleotide binding]; other site 272942008715 Predicted transcriptional regulator [Transcription]; Region: COG2932 272942008716 salt bridge; other site 272942008717 sequence-specific DNA binding site [nucleotide binding]; other site 272942008718 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272942008719 Catalytic site [active] 272942008720 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 272942008721 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272942008722 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272942008723 catalytic residues [active] 272942008724 catalytic nucleophile [active] 272942008725 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942008726 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942008727 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942008728 Synaptic Site I dimer interface [polypeptide binding]; other site 272942008729 DNA binding site [nucleotide binding] 272942008730 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272942008731 DNA-binding interface [nucleotide binding]; DNA binding site 272942008732 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272942008733 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942008734 active site 272942008735 DNA binding site [nucleotide binding] 272942008736 Int/Topo IB signature motif; other site 272942008737 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 272942008738 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942008739 non-specific DNA binding site [nucleotide binding]; other site 272942008740 salt bridge; other site 272942008741 sequence-specific DNA binding site [nucleotide binding]; other site 272942008742 Domain of unknown function (DUF955); Region: DUF955; cl01076 272942008743 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 272942008744 Uncharacterized conserved protein [Function unknown]; Region: COG4748 272942008745 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 272942008746 Helix-turn-helix domain; Region: HTH_17; pfam12728 272942008747 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 272942008748 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272942008749 active site 272942008750 Int/Topo IB signature motif; other site 272942008751 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 272942008752 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 272942008753 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272942008754 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272942008755 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 272942008756 dimer interface [polypeptide binding]; other site 272942008757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008758 catalytic residue [active] 272942008759 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 272942008760 putative active site pocket [active] 272942008761 dimerization interface [polypeptide binding]; other site 272942008762 putative catalytic residue [active] 272942008763 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 272942008764 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 272942008765 dimer interface [polypeptide binding]; other site 272942008766 ADP-ribose binding site [chemical binding]; other site 272942008767 active site 272942008768 nudix motif; other site 272942008769 metal binding site [ion binding]; metal-binding site 272942008770 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 272942008771 DNA photolyase; Region: DNA_photolyase; pfam00875 272942008772 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942008773 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272942008774 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 272942008775 NeuB family; Region: NeuB; pfam03102 272942008776 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 272942008777 NeuB binding interface [polypeptide binding]; other site 272942008778 putative substrate binding site [chemical binding]; other site 272942008779 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 272942008780 Rhamnan synthesis protein F; Region: RgpF; pfam05045 272942008781 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 272942008782 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 272942008783 active site 272942008784 homodimer interface [polypeptide binding]; other site 272942008785 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272942008786 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 272942008787 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942008788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008789 NAD(P) binding site [chemical binding]; other site 272942008790 active site 272942008791 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 272942008792 ligand binding site; other site 272942008793 tetramer interface; other site 272942008794 H-type lectin domain; Region: H_lectin; pfam09458 272942008795 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 272942008796 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 272942008797 gamma subunit interface [polypeptide binding]; other site 272942008798 epsilon subunit interface [polypeptide binding]; other site 272942008799 LBP interface [polypeptide binding]; other site 272942008800 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272942008801 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272942008802 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 272942008803 alpha subunit interaction interface [polypeptide binding]; other site 272942008804 Walker A motif; other site 272942008805 ATP binding site [chemical binding]; other site 272942008806 Walker B motif; other site 272942008807 inhibitor binding site; inhibition site 272942008808 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272942008809 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 272942008810 core domain interface [polypeptide binding]; other site 272942008811 delta subunit interface [polypeptide binding]; other site 272942008812 epsilon subunit interface [polypeptide binding]; other site 272942008813 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272942008814 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272942008815 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 272942008816 beta subunit interaction interface [polypeptide binding]; other site 272942008817 Walker A motif; other site 272942008818 ATP binding site [chemical binding]; other site 272942008819 Walker B motif; other site 272942008820 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272942008821 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 272942008822 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272942008823 Methyltransferase domain; Region: Methyltransf_23; pfam13489 272942008824 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942008825 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942008826 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 272942008827 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942008828 Walker A motif; other site 272942008829 ATP binding site [chemical binding]; other site 272942008830 Walker B motif; other site 272942008831 arginine finger; other site 272942008832 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942008833 Walker A motif; other site 272942008834 ATP binding site [chemical binding]; other site 272942008835 Walker B motif; other site 272942008836 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272942008837 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272942008838 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942008839 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272942008840 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272942008841 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 272942008842 RNA binding surface [nucleotide binding]; other site 272942008843 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 272942008844 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942008845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008846 homodimer interface [polypeptide binding]; other site 272942008847 catalytic residue [active] 272942008848 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 272942008849 prephenate dehydrogenase; Validated; Region: PRK08507 272942008850 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 272942008851 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 272942008852 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 272942008853 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 272942008854 putative active site pocket [active] 272942008855 dimerization interface [polypeptide binding]; other site 272942008856 putative catalytic residue [active] 272942008857 hypothetical protein; Validated; Region: PRK09039 272942008858 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942008859 ligand binding site [chemical binding]; other site 272942008860 Hint domain; Region: Hint_2; pfam13403 272942008861 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 272942008862 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 272942008863 putative deacylase active site [active] 272942008864 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 272942008865 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 272942008866 NAD binding site [chemical binding]; other site 272942008867 homodimer interface [polypeptide binding]; other site 272942008868 homotetramer interface [polypeptide binding]; other site 272942008869 active site 272942008870 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 272942008871 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272942008872 dimer interface [polypeptide binding]; other site 272942008873 active site 272942008874 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 272942008875 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 272942008876 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 272942008877 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272942008878 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942008879 putative acyl-acceptor binding pocket; other site 272942008880 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 272942008881 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 272942008882 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 272942008883 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272942008884 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272942008885 putative catalytic cysteine [active] 272942008886 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272942008887 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272942008888 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942008889 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942008890 PAS fold; Region: PAS_3; pfam08447 272942008891 PAS domain; Region: PAS; smart00091 272942008892 putative active site [active] 272942008893 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942008894 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942008895 metal binding site [ion binding]; metal-binding site 272942008896 active site 272942008897 I-site; other site 272942008898 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942008899 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 272942008900 ApbE family; Region: ApbE; pfam02424 272942008901 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 272942008902 Flavodoxin; Region: Flavodoxin_1; pfam00258 272942008903 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 272942008904 FAD binding pocket [chemical binding]; other site 272942008905 FAD binding motif [chemical binding]; other site 272942008906 catalytic residues [active] 272942008907 NAD binding pocket [chemical binding]; other site 272942008908 phosphate binding motif [ion binding]; other site 272942008909 beta-alpha-beta structure motif; other site 272942008910 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 272942008911 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 272942008912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942008913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008914 active site 272942008915 phosphorylation site [posttranslational modification] 272942008916 intermolecular recognition site; other site 272942008917 dimerization interface [polypeptide binding]; other site 272942008918 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942008919 DNA binding site [nucleotide binding] 272942008920 sensor protein QseC; Provisional; Region: PRK10337 272942008921 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942008922 dimer interface [polypeptide binding]; other site 272942008923 phosphorylation site [posttranslational modification] 272942008924 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008925 ATP binding site [chemical binding]; other site 272942008926 Mg2+ binding site [ion binding]; other site 272942008927 G-X-G motif; other site 272942008928 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 272942008929 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 272942008930 putative active site; other site 272942008931 catalytic residue [active] 272942008932 Cache domain; Region: Cache_1; pfam02743 272942008933 FOG: HAMP domain [Signal transduction mechanisms]; Region: ResE; COG2770 272942008934 dimerization interface [polypeptide binding]; other site 272942008935 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272942008936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272942008937 dimer interface [polypeptide binding]; other site 272942008938 putative CheW interface [polypeptide binding]; other site 272942008939 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 272942008940 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 272942008941 TrkA-N domain; Region: TrkA_N; pfam02254 272942008942 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 272942008943 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 272942008944 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272942008945 active site 272942008946 DctM-like transporters; Region: DctM; pfam06808 272942008947 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 272942008948 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 272942008949 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272942008950 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 272942008951 PAS domain S-box; Region: sensory_box; TIGR00229 272942008952 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942008953 putative active site [active] 272942008954 heme pocket [chemical binding]; other site 272942008955 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942008956 dimer interface [polypeptide binding]; other site 272942008957 phosphorylation site [posttranslational modification] 272942008958 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942008959 ATP binding site [chemical binding]; other site 272942008960 Mg2+ binding site [ion binding]; other site 272942008961 G-X-G motif; other site 272942008962 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 272942008963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942008964 active site 272942008965 phosphorylation site [posttranslational modification] 272942008966 intermolecular recognition site; other site 272942008967 dimerization interface [polypeptide binding]; other site 272942008968 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272942008969 dimerization interface [polypeptide binding]; other site 272942008970 DNA binding residues [nucleotide binding] 272942008971 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 272942008972 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942008973 FeS/SAM binding site; other site 272942008974 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 272942008975 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 272942008976 yiaA/B two helix domain; Region: YiaAB; cl01759 272942008977 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942008978 WHG domain; Region: WHG; pfam13305 272942008979 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 272942008980 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 272942008981 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 272942008982 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942008983 catalytic loop [active] 272942008984 iron binding site [ion binding]; other site 272942008985 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 272942008986 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 272942008987 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 272942008988 [4Fe-4S] binding site [ion binding]; other site 272942008989 molybdopterin cofactor binding site; other site 272942008990 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 272942008991 molybdopterin cofactor binding site; other site 272942008992 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 272942008993 putative dimer interface [polypeptide binding]; other site 272942008994 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 272942008995 SLBB domain; Region: SLBB; pfam10531 272942008996 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 272942008997 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 272942008998 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 272942008999 putative dimer interface [polypeptide binding]; other site 272942009000 [2Fe-2S] cluster binding site [ion binding]; other site 272942009001 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 272942009002 MoaE homodimer interface [polypeptide binding]; other site 272942009003 MoaD interaction [polypeptide binding]; other site 272942009004 active site residues [active] 272942009005 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272942009006 MoaE interaction surface [polypeptide binding]; other site 272942009007 MoeB interaction surface [polypeptide binding]; other site 272942009008 thiocarboxylated glycine; other site 272942009009 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942009010 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 272942009011 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272942009012 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272942009013 dimer interface [polypeptide binding]; other site 272942009014 active site 272942009015 metal binding site [ion binding]; metal-binding site 272942009016 glutathione binding site [chemical binding]; other site 272942009017 GTP-binding protein YchF; Reviewed; Region: PRK09601 272942009018 YchF GTPase; Region: YchF; cd01900 272942009019 G1 box; other site 272942009020 GTP/Mg2+ binding site [chemical binding]; other site 272942009021 Switch I region; other site 272942009022 G2 box; other site 272942009023 Switch II region; other site 272942009024 G3 box; other site 272942009025 G4 box; other site 272942009026 G5 box; other site 272942009027 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 272942009028 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 272942009029 substrate binding site [chemical binding]; other site 272942009030 active site 272942009031 catalytic residues [active] 272942009032 heterodimer interface [polypeptide binding]; other site 272942009033 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 272942009034 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272942009035 phosphate binding site [ion binding]; other site 272942009036 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 272942009037 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272942009038 5S rRNA interface [nucleotide binding]; other site 272942009039 CTC domain interface [polypeptide binding]; other site 272942009040 L16 interface [polypeptide binding]; other site 272942009041 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 272942009042 putative active site [active] 272942009043 catalytic residue [active] 272942009044 Hint domain; Region: Hint_2; pfam13403 272942009045 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 272942009046 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272942009047 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272942009048 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 272942009049 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942009050 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272942009051 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272942009052 DNA binding residues [nucleotide binding] 272942009053 DNA primase, catalytic core; Region: dnaG; TIGR01391 272942009054 CHC2 zinc finger; Region: zf-CHC2; cl17510 272942009055 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272942009056 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 272942009057 active site 272942009058 metal binding site [ion binding]; metal-binding site 272942009059 interdomain interaction site; other site 272942009060 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272942009061 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 272942009062 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942009063 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942009064 homoserine dehydrogenase; Provisional; Region: PRK06349 272942009065 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 272942009066 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272942009067 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 272942009068 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 272942009069 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 272942009070 putative active site [active] 272942009071 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272942009072 DHH family; Region: DHH; pfam01368 272942009073 DHHA1 domain; Region: DHHA1; pfam02272 272942009074 HPP family; Region: HPP; pfam04982 272942009075 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 272942009076 FOG: CBS domain [General function prediction only]; Region: COG0517 272942009077 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 272942009078 Iron permease FTR1 family; Region: FTR1; cl00475 272942009079 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 272942009080 Imelysin; Region: Peptidase_M75; cl09159 272942009081 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 272942009082 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 272942009083 Imelysin; Region: Peptidase_M75; pfam09375 272942009084 Cache domain; Region: Cache_1; pfam02743 272942009085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942009086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942009087 dimer interface [polypeptide binding]; other site 272942009088 phosphorylation site [posttranslational modification] 272942009089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942009090 ATP binding site [chemical binding]; other site 272942009091 Mg2+ binding site [ion binding]; other site 272942009092 G-X-G motif; other site 272942009093 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 272942009094 transcription antitermination factor NusB; Region: nusB; TIGR01951 272942009095 putative RNA binding site [nucleotide binding]; other site 272942009096 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 272942009097 homopentamer interface [polypeptide binding]; other site 272942009098 active site 272942009099 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 272942009100 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 272942009101 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 272942009102 dimerization interface [polypeptide binding]; other site 272942009103 active site 272942009104 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272942009105 Lumazine binding domain; Region: Lum_binding; pfam00677 272942009106 Lumazine binding domain; Region: Lum_binding; pfam00677 272942009107 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 272942009108 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 272942009109 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942009110 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 272942009111 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 272942009112 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272942009113 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 272942009114 catalytic motif [active] 272942009115 Zn binding site [ion binding]; other site 272942009116 RibD C-terminal domain; Region: RibD_C; cl17279 272942009117 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272942009118 ATP cone domain; Region: ATP-cone; pfam03477 272942009119 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 272942009120 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272942009121 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272942009122 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 272942009123 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272942009124 EcsC protein family; Region: EcsC; pfam12787 272942009125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942009126 Coenzyme A binding pocket [chemical binding]; other site 272942009127 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 272942009128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942009129 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 272942009130 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 272942009131 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272942009132 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272942009133 active site 272942009134 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942009135 FAD binding domain; Region: FAD_binding_4; pfam01565 272942009136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272942009137 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942009138 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942009139 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272942009140 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942009141 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 272942009142 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 272942009143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009144 catalytic residue [active] 272942009145 protease TldD; Provisional; Region: tldD; PRK10735 272942009146 DNA protecting protein DprA; Region: dprA; TIGR00732 272942009147 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 272942009148 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 272942009149 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 272942009150 active site 272942009151 interdomain interaction site; other site 272942009152 putative metal-binding site [ion binding]; other site 272942009153 nucleotide binding site [chemical binding]; other site 272942009154 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 272942009155 domain I; other site 272942009156 DNA binding groove [nucleotide binding] 272942009157 phosphate binding site [ion binding]; other site 272942009158 domain II; other site 272942009159 domain III; other site 272942009160 nucleotide binding site [chemical binding]; other site 272942009161 catalytic site [active] 272942009162 domain IV; other site 272942009163 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272942009164 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272942009165 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272942009166 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272942009167 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 272942009168 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 272942009169 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 272942009170 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942009171 FAD binding domain; Region: FAD_binding_4; pfam01565 272942009172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009173 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272942009174 NAD(P) binding site [chemical binding]; other site 272942009175 active site 272942009176 enoyl-CoA hydratase; Provisional; Region: PRK07509 272942009177 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942009178 substrate binding site [chemical binding]; other site 272942009179 oxyanion hole (OAH) forming residues; other site 272942009180 trimer interface [polypeptide binding]; other site 272942009181 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 272942009182 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942009183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009184 homodimer interface [polypeptide binding]; other site 272942009185 catalytic residue [active] 272942009186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 272942009187 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272942009188 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942009189 catalytic residue [active] 272942009190 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942009191 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942009192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942009193 Walker A/P-loop; other site 272942009194 ATP binding site [chemical binding]; other site 272942009195 Q-loop/lid; other site 272942009196 ABC transporter signature motif; other site 272942009197 Walker B; other site 272942009198 D-loop; other site 272942009199 H-loop/switch region; other site 272942009200 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 272942009201 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 272942009202 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942009203 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 272942009204 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 272942009205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942009206 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942009207 S-adenosylmethionine binding site [chemical binding]; other site 272942009208 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 272942009209 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272942009210 active site 272942009211 Recombinase; Region: Recombinase; pfam07508 272942009212 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 272942009213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942009214 Walker A/P-loop; other site 272942009215 ATP binding site [chemical binding]; other site 272942009216 Q-loop/lid; other site 272942009217 ABC transporter signature motif; other site 272942009218 Walker B; other site 272942009219 D-loop; other site 272942009220 H-loop/switch region; other site 272942009221 ABC transporter; Region: ABC_tran_2; pfam12848 272942009222 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272942009223 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 272942009224 GTP-binding protein LepA; Provisional; Region: PRK05433 272942009225 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 272942009226 G1 box; other site 272942009227 putative GEF interaction site [polypeptide binding]; other site 272942009228 GTP/Mg2+ binding site [chemical binding]; other site 272942009229 Switch I region; other site 272942009230 G2 box; other site 272942009231 G3 box; other site 272942009232 Switch II region; other site 272942009233 G4 box; other site 272942009234 G5 box; other site 272942009235 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 272942009236 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 272942009237 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272942009238 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 272942009239 metal-binding site [ion binding] 272942009240 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942009241 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272942009242 active site 272942009243 NAD-dependent deacetylase; Provisional; Region: PRK00481 272942009244 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 272942009245 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 272942009246 membrane ATPase/protein kinase; Provisional; Region: PRK09435 272942009247 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 272942009248 Walker A; other site 272942009249 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 272942009250 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942009251 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 272942009252 ATP binding site [chemical binding]; other site 272942009253 putative Mg++ binding site [ion binding]; other site 272942009254 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 272942009255 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 272942009256 Isochorismatase family; Region: Isochorismatase; pfam00857 272942009257 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 272942009258 catalytic triad [active] 272942009259 conserved cis-peptide bond; other site 272942009260 ornithine carbamoyltransferase; Provisional; Region: PRK00779 272942009261 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272942009262 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272942009263 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 272942009264 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942009265 inhibitor-cofactor binding pocket; inhibition site 272942009266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009267 catalytic residue [active] 272942009268 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 272942009269 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 272942009270 enoyl-CoA hydratase; Provisional; Region: PRK08140 272942009271 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942009272 substrate binding site [chemical binding]; other site 272942009273 oxyanion hole (OAH) forming residues; other site 272942009274 trimer interface [polypeptide binding]; other site 272942009275 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 272942009276 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 272942009277 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942009278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942009279 Walker A/P-loop; other site 272942009280 ATP binding site [chemical binding]; other site 272942009281 Q-loop/lid; other site 272942009282 ABC transporter signature motif; other site 272942009283 Walker B; other site 272942009284 D-loop; other site 272942009285 H-loop/switch region; other site 272942009286 AMP-binding domain protein; Validated; Region: PRK07529 272942009287 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942009288 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 272942009289 acyl-activating enzyme (AAE) consensus motif; other site 272942009290 putative AMP binding site [chemical binding]; other site 272942009291 putative active site [active] 272942009292 putative CoA binding site [chemical binding]; other site 272942009293 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272942009294 DNA-binding site [nucleotide binding]; DNA binding site 272942009295 RNA-binding motif; other site 272942009296 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 272942009297 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942009298 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942009299 FeS/SAM binding site; other site 272942009300 GcrA cell cycle regulator; Region: GcrA; cl11564 272942009301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942009302 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 272942009303 putative DNA binding site [nucleotide binding]; other site 272942009304 putative Zn2+ binding site [ion binding]; other site 272942009305 AsnC family; Region: AsnC_trans_reg; pfam01037 272942009306 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 272942009307 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942009308 inhibitor-cofactor binding pocket; inhibition site 272942009309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009310 catalytic residue [active] 272942009311 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272942009312 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 272942009313 DNA binding residues [nucleotide binding] 272942009314 dimer interface [polypeptide binding]; other site 272942009315 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272942009316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942009317 non-specific DNA binding site [nucleotide binding]; other site 272942009318 salt bridge; other site 272942009319 sequence-specific DNA binding site [nucleotide binding]; other site 272942009320 Cupin domain; Region: Cupin_2; pfam07883 272942009321 META domain; Region: META; pfam03724 272942009322 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 272942009323 choline dehydrogenase; Validated; Region: PRK02106 272942009324 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272942009325 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 272942009326 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272942009327 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 272942009328 putative tRNA-binding site [nucleotide binding]; other site 272942009329 B3/4 domain; Region: B3_4; pfam03483 272942009330 tRNA synthetase B5 domain; Region: B5; smart00874 272942009331 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 272942009332 dimer interface [polypeptide binding]; other site 272942009333 motif 1; other site 272942009334 motif 3; other site 272942009335 motif 2; other site 272942009336 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 272942009337 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272942009338 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 272942009339 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 272942009340 dimer interface [polypeptide binding]; other site 272942009341 motif 1; other site 272942009342 active site 272942009343 motif 2; other site 272942009344 motif 3; other site 272942009345 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272942009346 23S rRNA binding site [nucleotide binding]; other site 272942009347 L21 binding site [polypeptide binding]; other site 272942009348 L13 binding site [polypeptide binding]; other site 272942009349 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 272942009350 pyruvate kinase; Provisional; Region: PRK06247 272942009351 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 272942009352 domain interfaces; other site 272942009353 active site 272942009354 N-formylglutamate amidohydrolase; Region: FGase; cl01522 272942009355 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942009356 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 272942009357 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 272942009358 homodimer interface [polypeptide binding]; other site 272942009359 substrate-cofactor binding pocket; other site 272942009360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009361 catalytic residue [active] 272942009362 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 272942009363 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 272942009364 active site 272942009365 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 272942009366 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 272942009367 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 272942009368 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 272942009369 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272942009370 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942009371 putative acyl-acceptor binding pocket; other site 272942009372 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 272942009373 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272942009374 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272942009375 Walker A/P-loop; other site 272942009376 ATP binding site [chemical binding]; other site 272942009377 Q-loop/lid; other site 272942009378 ABC transporter signature motif; other site 272942009379 Walker B; other site 272942009380 D-loop; other site 272942009381 H-loop/switch region; other site 272942009382 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 272942009383 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 272942009384 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272942009385 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272942009386 active site 272942009387 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942009388 substrate binding site [chemical binding]; other site 272942009389 catalytic residues [active] 272942009390 dimer interface [polypeptide binding]; other site 272942009391 argininosuccinate lyase; Provisional; Region: PRK00855 272942009392 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272942009393 active sites [active] 272942009394 tetramer interface [polypeptide binding]; other site 272942009395 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272942009396 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272942009397 catalytic residues [active] 272942009398 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942009399 PAS domain; Region: PAS_9; pfam13426 272942009400 putative active site [active] 272942009401 heme pocket [chemical binding]; other site 272942009402 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942009403 putative acyltransferase; Provisional; Region: PRK05790 272942009404 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272942009405 dimer interface [polypeptide binding]; other site 272942009406 active site 272942009407 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 272942009408 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272942009409 NAD(P) binding site [chemical binding]; other site 272942009410 homotetramer interface [polypeptide binding]; other site 272942009411 homodimer interface [polypeptide binding]; other site 272942009412 active site 272942009413 aromatic amino acid exporter; Provisional; Region: PRK11689 272942009414 EamA-like transporter family; Region: EamA; pfam00892 272942009415 Protein of unknown function (DUF465); Region: DUF465; pfam04325 272942009416 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272942009417 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272942009418 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 272942009419 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272942009420 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942009421 substrate binding pocket [chemical binding]; other site 272942009422 chain length determination region; other site 272942009423 substrate-Mg2+ binding site; other site 272942009424 catalytic residues [active] 272942009425 aspartate-rich region 1; other site 272942009426 active site lid residues [active] 272942009427 aspartate-rich region 2; other site 272942009428 RNA helicase; Region: RNA_helicase; pfam00910 272942009429 LytTr DNA-binding domain; Region: LytTR; smart00850 272942009430 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 272942009431 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272942009432 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272942009433 homodimer interface [polypeptide binding]; other site 272942009434 NADP binding site [chemical binding]; other site 272942009435 substrate binding site [chemical binding]; other site 272942009436 Chorismate mutase type II; Region: CM_2; smart00830 272942009437 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 272942009438 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 272942009439 Potassium binding sites [ion binding]; other site 272942009440 Cesium cation binding sites [ion binding]; other site 272942009441 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942009442 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942009443 FtsH Extracellular; Region: FtsH_ext; pfam06480 272942009444 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272942009445 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942009446 Walker A motif; other site 272942009447 ATP binding site [chemical binding]; other site 272942009448 Walker B motif; other site 272942009449 arginine finger; other site 272942009450 Peptidase family M41; Region: Peptidase_M41; pfam01434 272942009451 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 272942009452 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 272942009453 Ligand Binding Site [chemical binding]; other site 272942009454 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 272942009455 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942009456 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942009457 ligand binding site [chemical binding]; other site 272942009458 translocation protein TolB; Provisional; Region: tolB; PRK05137 272942009459 TolB amino-terminal domain; Region: TolB_N; pfam04052 272942009460 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272942009461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272942009462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272942009463 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 272942009464 TolR protein; Region: tolR; TIGR02801 272942009465 TolQ protein; Region: tolQ; TIGR02796 272942009466 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 272942009467 active site 272942009468 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 272942009469 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272942009470 N- and C-terminal domain interface [polypeptide binding]; other site 272942009471 active site 272942009472 MgATP binding site [chemical binding]; other site 272942009473 catalytic site [active] 272942009474 metal binding site [ion binding]; metal-binding site 272942009475 glycerol binding site [chemical binding]; other site 272942009476 homotetramer interface [polypeptide binding]; other site 272942009477 homodimer interface [polypeptide binding]; other site 272942009478 FBP binding site [chemical binding]; other site 272942009479 protein IIAGlc interface [polypeptide binding]; other site 272942009480 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 272942009481 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 272942009482 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942009483 active site 272942009484 HIGH motif; other site 272942009485 nucleotide binding site [chemical binding]; other site 272942009486 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272942009487 active site 272942009488 KMSKS motif; other site 272942009489 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 272942009490 tRNA binding surface [nucleotide binding]; other site 272942009491 anticodon binding site; other site 272942009492 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272942009493 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 272942009494 EamA-like transporter family; Region: EamA; cl17759 272942009495 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 272942009496 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 272942009497 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272942009498 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942009499 active site 272942009500 DNA binding site [nucleotide binding] 272942009501 Int/Topo IB signature motif; other site 272942009502 Protein of unknown function, DUF484; Region: DUF484; cl17449 272942009503 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272942009504 active site 272942009505 intersubunit interactions; other site 272942009506 catalytic residue [active] 272942009507 primosome assembly protein PriA; Validated; Region: PRK05580 272942009508 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942009509 ATP binding site [chemical binding]; other site 272942009510 putative Mg++ binding site [ion binding]; other site 272942009511 nucleotide binding region [chemical binding]; other site 272942009512 helicase superfamily c-terminal domain; Region: HELICc; smart00490 272942009513 ATP-binding site [chemical binding]; other site 272942009514 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 272942009515 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942009516 S-adenosylmethionine binding site [chemical binding]; other site 272942009517 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 272942009518 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 272942009519 active site 272942009520 putative DNA-binding cleft [nucleotide binding]; other site 272942009521 dimer interface [polypeptide binding]; other site 272942009522 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272942009523 RuvA N terminal domain; Region: RuvA_N; pfam01330 272942009524 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272942009525 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272942009526 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942009527 Walker A motif; other site 272942009528 ATP binding site [chemical binding]; other site 272942009529 Walker B motif; other site 272942009530 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272942009531 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 272942009532 heme-binding site [chemical binding]; other site 272942009533 hypothetical protein; Provisional; Region: PRK05415 272942009534 Domain of unknown function (DUF697); Region: DUF697; pfam05128 272942009535 YcjX-like family, DUF463; Region: DUF463; pfam04317 272942009536 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272942009537 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 272942009538 dimerization interface 3.5A [polypeptide binding]; other site 272942009539 active site 272942009540 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272942009541 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272942009542 NAD(P) binding site [chemical binding]; other site 272942009543 homodimer interface [polypeptide binding]; other site 272942009544 substrate binding site [chemical binding]; other site 272942009545 active site 272942009546 Bacterial sugar transferase; Region: Bac_transf; pfam02397 272942009547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009548 active site 272942009549 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 272942009550 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942009551 aminotransferase; Provisional; Region: PRK13356 272942009552 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 272942009553 homodimer interface [polypeptide binding]; other site 272942009554 substrate-cofactor binding pocket; other site 272942009555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009556 catalytic residue [active] 272942009557 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272942009558 Ligand Binding Site [chemical binding]; other site 272942009559 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 272942009560 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 272942009561 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 272942009562 Glycoprotease family; Region: Peptidase_M22; pfam00814 272942009563 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272942009564 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 272942009565 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 272942009566 ligand binding site [chemical binding]; other site 272942009567 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272942009568 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 272942009569 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272942009570 Walker A/P-loop; other site 272942009571 ATP binding site [chemical binding]; other site 272942009572 Q-loop/lid; other site 272942009573 ABC transporter signature motif; other site 272942009574 Walker B; other site 272942009575 D-loop; other site 272942009576 H-loop/switch region; other site 272942009577 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272942009578 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942009579 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942009580 TM-ABC transporter signature motif; other site 272942009581 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942009582 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942009583 TM-ABC transporter signature motif; other site 272942009584 purine nucleoside phosphorylase; Provisional; Region: PRK08202 272942009585 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942009586 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 272942009587 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942009588 AsnC family; Region: AsnC_trans_reg; pfam01037 272942009589 AAA domain; Region: AAA_30; pfam13604 272942009590 AAA domain; Region: AAA_30; pfam13604 272942009591 Family description; Region: UvrD_C_2; pfam13538 272942009592 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 272942009593 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272942009594 B12 binding site [chemical binding]; other site 272942009595 cobalt ligand [ion binding]; other site 272942009596 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 272942009597 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 272942009598 NAD(P) binding site [chemical binding]; other site 272942009599 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 272942009600 putative switch regulator; other site 272942009601 non-specific DNA interactions [nucleotide binding]; other site 272942009602 DNA binding site [nucleotide binding] 272942009603 sequence specific DNA binding site [nucleotide binding]; other site 272942009604 putative cAMP binding site [chemical binding]; other site 272942009605 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942009606 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272942009607 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272942009608 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272942009609 Ligand binding site; other site 272942009610 Putative Catalytic site; other site 272942009611 DXD motif; other site 272942009612 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 272942009613 ligand binding site; other site 272942009614 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 272942009615 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 272942009616 putative active site [active] 272942009617 putative metal binding site [ion binding]; other site 272942009618 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 272942009619 Cobalt transport protein; Region: CbiQ; cl00463 272942009620 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272942009621 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272942009622 Walker A/P-loop; other site 272942009623 ATP binding site [chemical binding]; other site 272942009624 Q-loop/lid; other site 272942009625 ABC transporter signature motif; other site 272942009626 Walker B; other site 272942009627 D-loop; other site 272942009628 H-loop/switch region; other site 272942009629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942009630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942009631 Walker A/P-loop; other site 272942009632 ATP binding site [chemical binding]; other site 272942009633 ABC transporter; Region: ABC_tran; pfam00005 272942009634 Q-loop/lid; other site 272942009635 ABC transporter signature motif; other site 272942009636 Walker B; other site 272942009637 D-loop; other site 272942009638 H-loop/switch region; other site 272942009639 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 272942009640 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 272942009641 Walker A/P-loop; other site 272942009642 ATP binding site [chemical binding]; other site 272942009643 Q-loop/lid; other site 272942009644 ABC transporter signature motif; other site 272942009645 Walker B; other site 272942009646 D-loop; other site 272942009647 H-loop/switch region; other site 272942009648 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 272942009649 Cytochrome P450; Region: p450; cl12078 272942009650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942009651 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942009652 ligand binding site [chemical binding]; other site 272942009653 flexible hinge region; other site 272942009654 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 272942009655 putative switch regulator; other site 272942009656 non-specific DNA interactions [nucleotide binding]; other site 272942009657 DNA binding site [nucleotide binding] 272942009658 sequence specific DNA binding site [nucleotide binding]; other site 272942009659 putative cAMP binding site [chemical binding]; other site 272942009660 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 272942009661 Cytochrome P450; Region: p450; cl12078 272942009662 methionine sulfoxide reductase A; Provisional; Region: PRK13014 272942009663 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 272942009664 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272942009665 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 272942009666 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272942009667 catalytic residues [active] 272942009668 methionine sulfoxide reductase B; Provisional; Region: PRK00222 272942009669 SelR domain; Region: SelR; pfam01641 272942009670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009671 NAD(P) binding site [chemical binding]; other site 272942009672 active site 272942009673 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 272942009674 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 272942009675 SIR2-like domain; Region: SIR2_2; pfam13289 272942009676 NifT/FixU protein; Region: NifT; pfam06988 272942009677 NifZ domain; Region: NifZ; pfam04319 272942009678 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 272942009679 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 272942009680 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942009681 FeS/SAM binding site; other site 272942009682 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 272942009683 Nif-specific regulatory protein; Region: nifA; TIGR01817 272942009684 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 272942009685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942009686 Walker A motif; other site 272942009687 ATP binding site [chemical binding]; other site 272942009688 Walker B motif; other site 272942009689 arginine finger; other site 272942009690 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272942009691 Nitrogen fixation protein NifW; Region: NifW; pfam03206 272942009692 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 272942009693 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 272942009694 active site 272942009695 catalytic residues [active] 272942009696 metal binding site [ion binding]; metal-binding site 272942009697 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 272942009698 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 272942009699 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942009700 catalytic residue [active] 272942009701 NifU-like domain; Region: NifU; pfam01106 272942009702 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 272942009703 NifQ; Region: NifQ; pfam04891 272942009704 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 272942009705 Rop-like; Region: Rop-like; pfam05082 272942009706 probable nitrogen fixation protein; Region: TIGR02935 272942009707 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 272942009708 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 272942009709 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272942009710 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 272942009711 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 272942009712 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 272942009713 catalytic triad [active] 272942009714 dimer interface [polypeptide binding]; other site 272942009715 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 272942009716 ApbE family; Region: ApbE; pfam02424 272942009717 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 272942009718 4Fe-4S binding domain; Region: Fer4; cl02805 272942009719 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272942009720 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942009721 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 272942009722 catalytic loop [active] 272942009723 iron binding site [ion binding]; other site 272942009724 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272942009725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272942009726 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 272942009727 electron transport complex protein RsxA; Provisional; Region: PRK05151 272942009728 ferredoxin; Provisional; Region: PRK08764 272942009729 Putative Fe-S cluster; Region: FeS; pfam04060 272942009730 4Fe-4S binding domain; Region: Fer4; pfam00037 272942009731 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 272942009732 SLBB domain; Region: SLBB; pfam10531 272942009733 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 272942009734 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 272942009735 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 272942009736 electron transport complex RsxE subunit; Provisional; Region: PRK12405 272942009737 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 272942009738 choline-sulfatase; Region: chol_sulfatase; TIGR03417 272942009739 Sulfatase; Region: Sulfatase; cl17466 272942009740 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 272942009741 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 272942009742 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 272942009743 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 272942009744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942009745 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942009746 dimerization interface [polypeptide binding]; other site 272942009747 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 272942009748 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942009749 FeS/SAM binding site; other site 272942009750 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 272942009751 PAS fold; Region: PAS_3; pfam08447 272942009752 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942009753 putative active site [active] 272942009754 heme pocket [chemical binding]; other site 272942009755 PAS fold; Region: PAS_3; pfam08447 272942009756 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 272942009757 PAS fold; Region: PAS_3; pfam08447 272942009758 putative active site [active] 272942009759 heme pocket [chemical binding]; other site 272942009760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272942009761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942009762 metal binding site [ion binding]; metal-binding site 272942009763 active site 272942009764 I-site; other site 272942009765 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942009766 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942009767 Coenzyme A binding pocket [chemical binding]; other site 272942009768 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 272942009769 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 272942009770 metal binding site [ion binding]; metal-binding site 272942009771 dimer interface [polypeptide binding]; other site 272942009772 Hint domain; Region: Hint_2; pfam13403 272942009773 Hint domain; Region: Hint_2; pfam13403 272942009774 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 272942009775 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942009776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942009777 active site 272942009778 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 272942009779 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 272942009780 Recombination protein O N terminal; Region: RecO_N; pfam11967 272942009781 Recombination protein O C terminal; Region: RecO_C; pfam02565 272942009782 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 272942009783 GTPase Era; Reviewed; Region: era; PRK00089 272942009784 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 272942009785 G1 box; other site 272942009786 GTP/Mg2+ binding site [chemical binding]; other site 272942009787 Switch I region; other site 272942009788 G2 box; other site 272942009789 Switch II region; other site 272942009790 G3 box; other site 272942009791 G4 box; other site 272942009792 G5 box; other site 272942009793 KH domain; Region: KH_2; pfam07650 272942009794 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 272942009795 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 272942009796 dimerization interface [polypeptide binding]; other site 272942009797 active site 272942009798 metal binding site [ion binding]; metal-binding site 272942009799 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 272942009800 dsRNA binding site [nucleotide binding]; other site 272942009801 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272942009802 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 272942009803 Catalytic site [active] 272942009804 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 272942009805 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 272942009806 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 272942009807 active site 272942009808 hydrophilic channel; other site 272942009809 dimerization interface [polypeptide binding]; other site 272942009810 catalytic residues [active] 272942009811 active site lid [active] 272942009812 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 272942009813 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272942009814 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272942009815 Zn2+ binding site [ion binding]; other site 272942009816 Mg2+ binding site [ion binding]; other site 272942009817 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272942009818 synthetase active site [active] 272942009819 NTP binding site [chemical binding]; other site 272942009820 metal binding site [ion binding]; metal-binding site 272942009821 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 272942009822 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272942009823 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 272942009824 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 272942009825 catalytic center binding site [active] 272942009826 ATP binding site [chemical binding]; other site 272942009827 Uncharacterized conserved protein [Function unknown]; Region: COG1432 272942009828 LabA_like proteins; Region: LabA; cd10911 272942009829 putative metal binding site [ion binding]; other site 272942009830 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272942009831 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272942009832 active site 272942009833 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 272942009834 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272942009835 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 272942009836 anti sigma factor interaction site; other site 272942009837 regulatory phosphorylation site [posttranslational modification]; other site 272942009838 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 272942009839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942009840 ATP binding site [chemical binding]; other site 272942009841 Mg2+ binding site [ion binding]; other site 272942009842 G-X-G motif; other site 272942009843 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 272942009844 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272942009845 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942009846 catalytic residue [active] 272942009847 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 272942009848 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 272942009849 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 272942009850 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272942009851 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272942009852 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 272942009853 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 272942009854 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942009855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009856 homodimer interface [polypeptide binding]; other site 272942009857 catalytic residue [active] 272942009858 hypothetical protein; Provisional; Region: PRK06102 272942009859 Amidase; Region: Amidase; cl11426 272942009860 hypothetical protein; Provisional; Region: PRK09126 272942009861 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 272942009862 Uncharacterized conserved protein [Function unknown]; Region: COG2835 272942009863 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 272942009864 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 272942009865 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 272942009866 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 272942009867 putative catalytic site [active] 272942009868 putative phosphate binding site [ion binding]; other site 272942009869 active site 272942009870 metal binding site A [ion binding]; metal-binding site 272942009871 DNA binding site [nucleotide binding] 272942009872 putative AP binding site [nucleotide binding]; other site 272942009873 putative metal binding site B [ion binding]; other site 272942009874 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942009875 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942009876 non-specific DNA binding site [nucleotide binding]; other site 272942009877 salt bridge; other site 272942009878 sequence-specific DNA binding site [nucleotide binding]; other site 272942009879 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942009880 Domain of unknown function (DUF955); Region: DUF955; pfam06114 272942009881 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942009882 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 272942009883 malate synthase A; Region: malate_syn_A; TIGR01344 272942009884 active site 272942009885 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 272942009886 tetramer interface [polypeptide binding]; other site 272942009887 active site 272942009888 Mg2+/Mn2+ binding site [ion binding]; other site 272942009889 isocitrate lyase; Region: PLN02892 272942009890 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 272942009891 ATP cone domain; Region: ATP-cone; pfam03477 272942009892 Class III ribonucleotide reductase; Region: RNR_III; cd01675 272942009893 effector binding site; other site 272942009894 active site 272942009895 Zn binding site [ion binding]; other site 272942009896 glycine loop; other site 272942009897 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 272942009898 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 272942009899 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942009900 FeS/SAM binding site; other site 272942009901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942009902 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942009903 non-specific DNA binding site [nucleotide binding]; other site 272942009904 salt bridge; other site 272942009905 sequence-specific DNA binding site [nucleotide binding]; other site 272942009906 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942009907 Domain of unknown function (DUF955); Region: DUF955; pfam06114 272942009908 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942009909 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 272942009910 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 272942009911 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 272942009912 methylcitrate synthase; Provisional; Region: PRK12351 272942009913 oxalacetate binding site [chemical binding]; other site 272942009914 citrylCoA binding site [chemical binding]; other site 272942009915 coenzyme A binding site [chemical binding]; other site 272942009916 catalytic triad [active] 272942009917 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 272942009918 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 272942009919 tetramer interface [polypeptide binding]; other site 272942009920 active site 272942009921 Mg2+/Mn2+ binding site [ion binding]; other site 272942009922 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272942009923 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 272942009924 FAD binding pocket [chemical binding]; other site 272942009925 FAD binding motif [chemical binding]; other site 272942009926 phosphate binding motif [ion binding]; other site 272942009927 beta-alpha-beta structure motif; other site 272942009928 NAD binding pocket [chemical binding]; other site 272942009929 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 272942009930 catalytic loop [active] 272942009931 iron binding site [ion binding]; other site 272942009932 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 272942009933 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 272942009934 [2Fe-2S] cluster binding site [ion binding]; other site 272942009935 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 272942009936 putative alpha subunit interface [polypeptide binding]; other site 272942009937 putative active site [active] 272942009938 putative substrate binding site [chemical binding]; other site 272942009939 Fe binding site [ion binding]; other site 272942009940 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 272942009941 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 272942009942 substrate binding pocket [chemical binding]; other site 272942009943 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 272942009944 B12 binding site [chemical binding]; other site 272942009945 cobalt ligand [ion binding]; other site 272942009946 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272942009947 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 272942009948 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 272942009949 cobyric acid synthase; Provisional; Region: PRK00784 272942009950 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942009951 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942009952 catalytic triad [active] 272942009953 cobyric acid synthase; Provisional; Region: PRK00784 272942009954 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272942009955 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942009956 catalytic triad [active] 272942009957 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 272942009958 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 272942009959 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942009960 N-terminal plug; other site 272942009961 ligand-binding site [chemical binding]; other site 272942009962 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942009963 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942009964 intersubunit interface [polypeptide binding]; other site 272942009965 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942009966 ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]; Region: FepD; COG0609 272942009967 putative PBP binding regions; other site 272942009968 ABC-ATPase subunit interface; other site 272942009969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942009970 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942009971 Walker A/P-loop; other site 272942009972 ATP binding site [chemical binding]; other site 272942009973 Q-loop/lid; other site 272942009974 ABC transporter signature motif; other site 272942009975 Walker B; other site 272942009976 D-loop; other site 272942009977 H-loop/switch region; other site 272942009978 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 272942009979 biotin synthase; Region: bioB; TIGR00433 272942009980 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942009981 FeS/SAM binding site; other site 272942009982 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 272942009983 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 272942009984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942009985 catalytic residue [active] 272942009986 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 272942009987 AAA domain; Region: AAA_26; pfam13500 272942009988 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942009989 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 272942009990 inhibitor-cofactor binding pocket; inhibition site 272942009991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009992 catalytic residue [active] 272942009993 potential frameshift: common BLAST hit: gi|53712892|ref|YP_098884.1| biotin synthesis protein BioC 272942009994 Protein of unknown function (DUF452); Region: DUF452; cl01062 272942009995 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272942009996 Methyltransferase domain; Region: Methyltransf_11; pfam08241 272942009997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942009998 DNA-binding site [nucleotide binding]; DNA binding site 272942009999 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 272942010000 FCD domain; Region: FCD; pfam07729 272942010001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942010002 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942010003 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942010004 dimerization interface [polypeptide binding]; other site 272942010005 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 272942010006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010007 NAD(P) binding site [chemical binding]; other site 272942010008 active site 272942010009 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 272942010010 tellurium resistance terB-like protein; Region: terB_like; cl11965 272942010011 Acetokinase family; Region: Acetate_kinase; cl17229 272942010012 propionate/acetate kinase; Provisional; Region: PRK12379 272942010013 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 272942010014 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 272942010015 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 272942010016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942010017 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 272942010018 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 272942010019 acyl-activating enzyme (AAE) consensus motif; other site 272942010020 AMP binding site [chemical binding]; other site 272942010021 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 272942010022 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 272942010023 SmpB-tmRNA interface; other site 272942010024 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 272942010025 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 272942010026 active site residue [active] 272942010027 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 272942010028 active site residue [active] 272942010029 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 272942010030 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942010031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942010032 homodimer interface [polypeptide binding]; other site 272942010033 catalytic residue [active] 272942010034 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272942010035 MarR family; Region: MarR_2; pfam12802 272942010036 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 272942010037 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272942010038 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942010039 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942010040 putative substrate translocation pore; other site 272942010041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942010042 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 272942010043 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 272942010044 Nitrogen regulatory protein P-II; Region: P-II; smart00938 272942010045 Transglycosylase; Region: Transgly; pfam00912 272942010046 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272942010047 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272942010048 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 272942010049 VacJ like lipoprotein; Region: VacJ; cl01073 272942010050 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 272942010051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942010052 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 272942010053 Walker A/P-loop; other site 272942010054 ATP binding site [chemical binding]; other site 272942010055 Q-loop/lid; other site 272942010056 ABC transporter signature motif; other site 272942010057 Walker B; other site 272942010058 D-loop; other site 272942010059 H-loop/switch region; other site 272942010060 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942010061 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272942010062 HlyD family secretion protein; Region: HlyD_3; pfam13437 272942010063 lytic murein transglycosylase; Region: MltB_2; TIGR02283 272942010064 murein hydrolase B; Provisional; Region: PRK10760; cl17906 272942010065 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942010066 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272942010067 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272942010068 putative active site [active] 272942010069 substrate binding site [chemical binding]; other site 272942010070 putative cosubstrate binding site; other site 272942010071 catalytic site [active] 272942010072 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272942010073 substrate binding site [chemical binding]; other site 272942010074 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 272942010075 active site 272942010076 catalytic residues [active] 272942010077 metal binding site [ion binding]; metal-binding site 272942010078 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 272942010079 active site 272942010080 catalytic residues [active] 272942010081 metal binding site [ion binding]; metal-binding site 272942010082 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 272942010083 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 272942010084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942010085 homodimer interface [polypeptide binding]; other site 272942010086 catalytic residue [active] 272942010087 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272942010088 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 272942010089 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 272942010090 active site 272942010091 dimer interface [polypeptide binding]; other site 272942010092 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272942010093 Clp amino terminal domain; Region: Clp_N; pfam02861 272942010094 Clp amino terminal domain; Region: Clp_N; pfam02861 272942010095 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942010096 Walker A motif; other site 272942010097 ATP binding site [chemical binding]; other site 272942010098 Walker B motif; other site 272942010099 arginine finger; other site 272942010100 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272942010101 Walker A motif; other site 272942010102 ATP binding site [chemical binding]; other site 272942010103 Walker B motif; other site 272942010104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272942010105 DNA polymerase IV; Provisional; Region: PRK02794 272942010106 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272942010107 active site 272942010108 DNA binding site [nucleotide binding] 272942010109 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 272942010110 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 272942010111 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272942010112 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942010113 motif II; other site 272942010114 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 272942010115 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 272942010116 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942010117 S-adenosylmethionine binding site [chemical binding]; other site 272942010118 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 272942010119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272942010120 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 272942010121 catalytic triad [active] 272942010122 dimer interface [polypeptide binding]; other site 272942010123 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 272942010124 Protein of unknown function, DUF482; Region: DUF482; pfam04339 272942010125 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 272942010126 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 272942010127 active site 272942010128 catalytic site [active] 272942010129 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 272942010130 homotrimer interaction site [polypeptide binding]; other site 272942010131 putative active site [active] 272942010132 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 272942010133 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272942010134 AAA domain; Region: AAA_23; pfam13476 272942010135 Walker A/P-loop; other site 272942010136 ATP binding site [chemical binding]; other site 272942010137 Q-loop/lid; other site 272942010138 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272942010139 Walker B; other site 272942010140 D-loop; other site 272942010141 H-loop/switch region; other site 272942010142 LrgA family; Region: LrgA; pfam03788 272942010143 LrgB-like family; Region: LrgB; pfam04172 272942010144 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272942010145 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942010146 active site 272942010147 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 272942010148 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 272942010149 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 272942010150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942010151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942010152 active site 272942010153 phosphorylation site [posttranslational modification] 272942010154 intermolecular recognition site; other site 272942010155 dimerization interface [polypeptide binding]; other site 272942010156 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942010157 DNA binding site [nucleotide binding] 272942010158 PAS fold; Region: PAS_7; pfam12860 272942010159 PAS fold; Region: PAS_4; pfam08448 272942010160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942010161 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942010162 ATP binding site [chemical binding]; other site 272942010163 G-X-G motif; other site 272942010164 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942010165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942010166 active site 272942010167 phosphorylation site [posttranslational modification] 272942010168 intermolecular recognition site; other site 272942010169 dimerization interface [polypeptide binding]; other site 272942010170 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942010171 acyl-activating enzyme (AAE) consensus motif; other site 272942010172 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942010173 AMP binding site [chemical binding]; other site 272942010174 active site 272942010175 CoA binding site [chemical binding]; other site 272942010176 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942010177 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 272942010178 Walker A/P-loop; other site 272942010179 ATP binding site [chemical binding]; other site 272942010180 Q-loop/lid; other site 272942010181 ABC transporter signature motif; other site 272942010182 Walker B; other site 272942010183 D-loop; other site 272942010184 H-loop/switch region; other site 272942010185 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 272942010186 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 272942010187 TM-ABC transporter signature motif; other site 272942010188 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 272942010189 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 272942010190 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 272942010191 TM-ABC transporter signature motif; other site 272942010192 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272942010193 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 272942010194 putative ligand binding site [chemical binding]; other site 272942010195 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942010196 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 272942010197 Walker A/P-loop; other site 272942010198 ATP binding site [chemical binding]; other site 272942010199 Q-loop/lid; other site 272942010200 ABC transporter signature motif; other site 272942010201 Walker B; other site 272942010202 D-loop; other site 272942010203 H-loop/switch region; other site 272942010204 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 272942010205 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272942010206 acyl-activating enzyme (AAE) consensus motif; other site 272942010207 AMP binding site [chemical binding]; other site 272942010208 active site 272942010209 CoA binding site [chemical binding]; other site 272942010210 methionine aminopeptidase; Provisional; Region: PRK12318 272942010211 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 272942010212 active site 272942010213 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 272942010214 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 272942010215 putative MPT binding site; other site 272942010216 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272942010217 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 272942010218 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942010219 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272942010220 ligand binding site [chemical binding]; other site 272942010221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942010222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942010223 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272942010224 putative effector binding pocket; other site 272942010225 dimerization interface [polypeptide binding]; other site 272942010226 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 272942010227 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 272942010228 active site 272942010229 FMN binding site [chemical binding]; other site 272942010230 2,4-decadienoyl-CoA binding site; other site 272942010231 catalytic residue [active] 272942010232 4Fe-4S cluster binding site [ion binding]; other site 272942010233 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 272942010234 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272942010235 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 272942010236 active site 272942010237 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 272942010238 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 272942010239 motif II; other site 272942010240 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 272942010241 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942010242 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272942010243 catalytic residue [active] 272942010244 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 272942010245 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 272942010246 ligand binding site [chemical binding]; other site 272942010247 NAD binding site [chemical binding]; other site 272942010248 dimerization interface [polypeptide binding]; other site 272942010249 catalytic site [active] 272942010250 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 272942010251 putative L-serine binding site [chemical binding]; other site 272942010252 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272942010253 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272942010254 active site 272942010255 metal binding site [ion binding]; metal-binding site 272942010256 beta-ketothiolase; Provisional; Region: PRK09051 272942010257 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272942010258 dimer interface [polypeptide binding]; other site 272942010259 active site 272942010260 Transglycosylase; Region: Transgly; pfam00912 272942010261 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272942010262 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 272942010263 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 272942010264 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 272942010265 putative binding site; other site 272942010266 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 272942010267 MG2 domain; Region: A2M_N; pfam01835 272942010268 Alpha-2-macroglobulin family; Region: A2M; pfam00207 272942010269 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 272942010270 surface patch; other site 272942010271 thioester region; other site 272942010272 specificity defining residues; other site 272942010273 PAS fold; Region: PAS_7; pfam12860 272942010274 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272942010275 dimer interface [polypeptide binding]; other site 272942010276 phosphorylation site [posttranslational modification] 272942010277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942010278 ATP binding site [chemical binding]; other site 272942010279 Mg2+ binding site [ion binding]; other site 272942010280 G-X-G motif; other site 272942010281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942010282 active site 272942010283 phosphorylation site [posttranslational modification] 272942010284 intermolecular recognition site; other site 272942010285 dimerization interface [polypeptide binding]; other site 272942010286 Response regulator receiver domain; Region: Response_reg; pfam00072 272942010287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942010288 active site 272942010289 phosphorylation site [posttranslational modification] 272942010290 intermolecular recognition site; other site 272942010291 dimerization interface [polypeptide binding]; other site 272942010292 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 272942010293 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 272942010294 ATP binding site [chemical binding]; other site 272942010295 putative Mg++ binding site [ion binding]; other site 272942010296 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 272942010297 nucleotide binding region [chemical binding]; other site 272942010298 ATP-binding site [chemical binding]; other site 272942010299 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 272942010300 HRDC domain; Region: HRDC; pfam00570 272942010301 HRDC domain; Region: HRDC; pfam00570 272942010302 YGGT family; Region: YGGT; pfam02325 272942010303 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 272942010304 active site 272942010305 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 272942010306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 272942010307 putative substrate translocation pore; other site 272942010308 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 272942010309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 272942010310 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 272942010311 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 272942010312 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 272942010313 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272942010314 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942010315 substrate binding pocket [chemical binding]; other site 272942010316 chain length determination region; other site 272942010317 substrate-Mg2+ binding site; other site 272942010318 catalytic residues [active] 272942010319 aspartate-rich region 1; other site 272942010320 active site lid residues [active] 272942010321 aspartate-rich region 2; other site 272942010322 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272942010323 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 272942010324 TPP-binding site; other site 272942010325 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 272942010326 PYR/PP interface [polypeptide binding]; other site 272942010327 dimer interface [polypeptide binding]; other site 272942010328 TPP binding site [chemical binding]; other site 272942010329 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942010330 ornithine cyclodeaminase; Validated; Region: PRK06141 272942010331 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 272942010332 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272942010333 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 272942010334 Predicted permeases [General function prediction only]; Region: COG0679 272942010335 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 272942010336 diiron binding motif [ion binding]; other site 272942010337 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272942010338 CCC1-related protein family; Region: CCC1_like_1; cd02437 272942010339 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 272942010340 Isochorismatase family; Region: Isochorismatase; pfam00857 272942010341 catalytic triad [active] 272942010342 metal binding site [ion binding]; metal-binding site 272942010343 conserved cis-peptide bond; other site 272942010344 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 272942010345 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 272942010346 active site 272942010347 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 272942010348 Phosphate transporter family; Region: PHO4; pfam01384 272942010349 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 272942010350 nudix motif; other site 272942010351 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 272942010352 active site 272942010353 ATP binding site [chemical binding]; other site 272942010354 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 272942010355 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 272942010356 inhibitor-cofactor binding pocket; inhibition site 272942010357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942010358 catalytic residue [active] 272942010359 hypothetical protein; Provisional; Region: PRK09256 272942010360 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 272942010361 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 272942010362 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942010363 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942010364 FeS/SAM binding site; other site 272942010365 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272942010366 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272942010367 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272942010368 methionine sulfoxide reductase B; Provisional; Region: PRK00222 272942010369 SelR domain; Region: SelR; pfam01641 272942010370 methionine sulfoxide reductase A; Provisional; Region: PRK14054 272942010371 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 272942010372 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 272942010373 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272942010374 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272942010375 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272942010376 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 272942010377 Uncharacterized conserved protein [Function unknown]; Region: COG3334 272942010378 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272942010379 flagellar motor protein MotA; Validated; Region: PRK09110 272942010380 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 272942010381 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 272942010382 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 272942010383 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 272942010384 FeS/SAM binding site; other site 272942010385 HemN C-terminal domain; Region: HemN_C; pfam06969 272942010386 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 272942010387 homotrimer interaction site [polypeptide binding]; other site 272942010388 putative active site [active] 272942010389 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 272942010390 active site 272942010391 dimerization interface [polypeptide binding]; other site 272942010392 ribonuclease PH; Reviewed; Region: rph; PRK00173 272942010393 Ribonuclease PH; Region: RNase_PH_bact; cd11362 272942010394 hexamer interface [polypeptide binding]; other site 272942010395 active site 272942010396 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 272942010397 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 272942010398 GrpE; Region: GrpE; pfam01025 272942010399 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 272942010400 dimer interface [polypeptide binding]; other site 272942010401 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272942010402 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272942010403 MutS domain I; Region: MutS_I; pfam01624 272942010404 MutS domain II; Region: MutS_II; pfam05188 272942010405 MutS domain III; Region: MutS_III; pfam05192 272942010406 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 272942010407 Walker A/P-loop; other site 272942010408 ATP binding site [chemical binding]; other site 272942010409 Q-loop/lid; other site 272942010410 ABC transporter signature motif; other site 272942010411 Walker B; other site 272942010412 D-loop; other site 272942010413 H-loop/switch region; other site 272942010414 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 272942010415 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272942010416 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272942010417 putative NAD(P) binding site [chemical binding]; other site 272942010418 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 272942010419 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272942010420 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 272942010421 substrate binding site [chemical binding]; other site 272942010422 dimer interface [polypeptide binding]; other site 272942010423 ATP binding site [chemical binding]; other site 272942010424 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 272942010425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 272942010426 active site 272942010427 phosphorylation site [posttranslational modification] 272942010428 intermolecular recognition site; other site 272942010429 dimerization interface [polypeptide binding]; other site 272942010430 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272942010431 DNA binding site [nucleotide binding] 272942010432 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272942010433 PhoU domain; Region: PhoU; pfam01895 272942010434 PhoU domain; Region: PhoU; pfam01895 272942010435 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 272942010436 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 272942010437 Walker A/P-loop; other site 272942010438 ATP binding site [chemical binding]; other site 272942010439 Q-loop/lid; other site 272942010440 ABC transporter signature motif; other site 272942010441 Walker B; other site 272942010442 D-loop; other site 272942010443 H-loop/switch region; other site 272942010444 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 272942010445 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 272942010446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010447 dimer interface [polypeptide binding]; other site 272942010448 conserved gate region; other site 272942010449 putative PBP binding loops; other site 272942010450 ABC-ATPase subunit interface; other site 272942010451 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 272942010452 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 272942010453 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010454 dimer interface [polypeptide binding]; other site 272942010455 conserved gate region; other site 272942010456 putative PBP binding loops; other site 272942010457 ABC-ATPase subunit interface; other site 272942010458 PBP superfamily domain; Region: PBP_like_2; pfam12849 272942010459 hypothetical protein; Provisional; Region: PRK02395 272942010460 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 272942010461 active site 272942010462 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 272942010463 putative active site [active] 272942010464 EVE domain; Region: EVE; cl00728 272942010465 YciI-like protein; Reviewed; Region: PRK12863 272942010466 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272942010467 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 272942010468 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272942010469 UGMP family protein; Validated; Region: PRK09604 272942010470 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 272942010471 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 272942010472 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 272942010473 active site 272942010474 HemY protein N-terminus; Region: HemY_N; pfam07219 272942010475 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 272942010476 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 272942010477 TPR motif; other site 272942010478 binding surface 272942010479 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 272942010480 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 272942010481 SAF-like; Region: SAF_2; pfam13144 272942010482 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 272942010483 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 272942010484 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272942010485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272942010486 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 272942010487 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272942010488 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 272942010489 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 272942010490 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 272942010491 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272942010492 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272942010493 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 272942010494 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 272942010495 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 272942010496 Walker A motif; other site 272942010497 ATP binding site [chemical binding]; other site 272942010498 Walker B motif; other site 272942010499 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272942010500 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272942010501 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 272942010502 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 272942010503 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 272942010504 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272942010505 Rod binding protein; Region: Rod-binding; pfam10135 272942010506 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 272942010507 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 272942010508 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272942010509 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 272942010510 ABC1 family; Region: ABC1; cl17513 272942010511 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 272942010512 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 272942010513 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942010514 S-adenosylmethionine binding site [chemical binding]; other site 272942010515 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 272942010516 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 272942010517 DNA binding site [nucleotide binding] 272942010518 catalytic residue [active] 272942010519 H2TH interface [polypeptide binding]; other site 272942010520 putative catalytic residues [active] 272942010521 turnover-facilitating residue; other site 272942010522 intercalation triad [nucleotide binding]; other site 272942010523 8OG recognition residue [nucleotide binding]; other site 272942010524 putative reading head residues; other site 272942010525 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272942010526 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272942010527 enoyl-CoA hydratase; Provisional; Region: PRK05862 272942010528 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272942010529 substrate binding site [chemical binding]; other site 272942010530 oxyanion hole (OAH) forming residues; other site 272942010531 trimer interface [polypeptide binding]; other site 272942010532 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 272942010533 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942010534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010535 dimer interface [polypeptide binding]; other site 272942010536 conserved gate region; other site 272942010537 putative PBP binding loops; other site 272942010538 ABC-ATPase subunit interface; other site 272942010539 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942010540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010541 dimer interface [polypeptide binding]; other site 272942010542 conserved gate region; other site 272942010543 putative PBP binding loops; other site 272942010544 ABC-ATPase subunit interface; other site 272942010545 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272942010546 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942010547 substrate binding pocket [chemical binding]; other site 272942010548 membrane-bound complex binding site; other site 272942010549 hinge residues; other site 272942010550 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272942010551 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272942010552 Walker A/P-loop; other site 272942010553 ATP binding site [chemical binding]; other site 272942010554 Q-loop/lid; other site 272942010555 ABC transporter signature motif; other site 272942010556 Walker B; other site 272942010557 D-loop; other site 272942010558 H-loop/switch region; other site 272942010559 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272942010560 active site 272942010561 homotetramer interface [polypeptide binding]; other site 272942010562 homodimer interface [polypeptide binding]; other site 272942010563 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272942010564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942010565 DNA-binding site [nucleotide binding]; DNA binding site 272942010566 UTRA domain; Region: UTRA; pfam07702 272942010567 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272942010568 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 272942010569 substrate binding site [chemical binding]; other site 272942010570 ATP binding site [chemical binding]; other site 272942010571 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272942010572 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 272942010573 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942010574 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942010575 DNA binding site [nucleotide binding] 272942010576 domain linker motif; other site 272942010577 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 272942010578 dimerization interface [polypeptide binding]; other site 272942010579 ligand binding site [chemical binding]; other site 272942010580 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 272942010581 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942010582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942010583 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942010584 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 272942010585 catalytic site [active] 272942010586 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272942010587 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 272942010588 ssDNA binding site [nucleotide binding]; other site 272942010589 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942010590 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 272942010591 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 272942010592 metal ion-dependent adhesion site (MIDAS); other site 272942010593 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 272942010594 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 272942010595 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 272942010596 substrate binding site; other site 272942010597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010599 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272942010600 NAD(P) binding site [chemical binding]; other site 272942010601 active site 272942010602 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 272942010603 nudix motif; other site 272942010604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942010605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942010606 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 272942010607 putative effector binding pocket; other site 272942010608 putative dimerization interface [polypeptide binding]; other site 272942010609 SnoaL-like domain; Region: SnoaL_2; pfam12680 272942010610 short chain dehydrogenase; Provisional; Region: PRK06523 272942010611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010612 NAD(P) binding site [chemical binding]; other site 272942010613 active site 272942010614 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942010615 non-specific DNA binding site [nucleotide binding]; other site 272942010616 salt bridge; other site 272942010617 sequence-specific DNA binding site [nucleotide binding]; other site 272942010618 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 272942010619 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 272942010620 active site 272942010621 Int/Topo IB signature motif; other site 272942010622 DNA binding site [nucleotide binding] 272942010623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 272942010624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942010625 G-X-G motif; other site 272942010626 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272942010627 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 272942010628 RNA ligase; Region: RNA_ligase; pfam09414 272942010629 hypothetical protein; Provisional; Region: PRK08317 272942010630 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942010631 S-adenosylmethionine binding site [chemical binding]; other site 272942010632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 272942010633 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 272942010634 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 272942010635 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942010636 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942010637 Walker A/P-loop; other site 272942010638 ATP binding site [chemical binding]; other site 272942010639 Q-loop/lid; other site 272942010640 ABC transporter signature motif; other site 272942010641 Walker B; other site 272942010642 D-loop; other site 272942010643 H-loop/switch region; other site 272942010644 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942010645 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942010646 dimer interface [polypeptide binding]; other site 272942010647 putative PBP binding regions; other site 272942010648 ABC-ATPase subunit interface; other site 272942010649 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 272942010650 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 272942010651 putative ligand binding residues [chemical binding]; other site 272942010652 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942010653 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942010654 Walker A/P-loop; other site 272942010655 ATP binding site [chemical binding]; other site 272942010656 Q-loop/lid; other site 272942010657 ABC transporter signature motif; other site 272942010658 Walker B; other site 272942010659 D-loop; other site 272942010660 H-loop/switch region; other site 272942010661 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942010662 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272942010663 dimer interface [polypeptide binding]; other site 272942010664 putative PBP binding regions; other site 272942010665 ABC-ATPase subunit interface; other site 272942010666 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942010667 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 272942010668 intersubunit interface [polypeptide binding]; other site 272942010669 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272942010670 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 272942010671 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 272942010672 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942010673 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942010674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942010675 Walker A/P-loop; other site 272942010676 ATP binding site [chemical binding]; other site 272942010677 Q-loop/lid; other site 272942010678 ABC transporter signature motif; other site 272942010679 Walker B; other site 272942010680 D-loop; other site 272942010681 H-loop/switch region; other site 272942010682 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272942010683 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 272942010684 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942010685 S-adenosylmethionine binding site [chemical binding]; other site 272942010686 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272942010687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942010688 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942010689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942010690 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 272942010691 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272942010692 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 272942010693 DctM-like transporters; Region: DctM; pfam06808 272942010694 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 272942010695 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 272942010696 oligomeric interface; other site 272942010697 putative active site [active] 272942010698 homodimer interface [polypeptide binding]; other site 272942010699 NnrS protein; Region: NnrS; pfam05940 272942010700 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272942010701 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 272942010702 ApbE family; Region: ApbE; pfam02424 272942010703 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 272942010704 NosL; Region: NosL; pfam05573 272942010705 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 272942010706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272942010707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272942010708 Walker A/P-loop; other site 272942010709 ATP binding site [chemical binding]; other site 272942010710 Q-loop/lid; other site 272942010711 ABC transporter signature motif; other site 272942010712 Walker B; other site 272942010713 D-loop; other site 272942010714 H-loop/switch region; other site 272942010715 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 272942010716 nitrous-oxide reductase, TAT-dependent; Region: nitrous_NosZ_RR; TIGR04244 272942010717 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 272942010718 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 272942010719 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272942010720 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942010721 Transcriptional regulator; Region: Rrf2; cl17282 272942010722 Rrf2 family protein; Region: rrf2_super; TIGR00738 272942010723 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942010724 dimerization interface [polypeptide binding]; other site 272942010725 putative DNA binding site [nucleotide binding]; other site 272942010726 putative Zn2+ binding site [ion binding]; other site 272942010727 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 272942010728 arsenical-resistance protein; Region: acr3; TIGR00832 272942010729 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 272942010730 active site residue [active] 272942010731 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 272942010732 catalytic residues [active] 272942010733 Predicted permeases [General function prediction only]; Region: COG0701 272942010734 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942010735 dimerization interface [polypeptide binding]; other site 272942010736 putative DNA binding site [nucleotide binding]; other site 272942010737 putative Zn2+ binding site [ion binding]; other site 272942010738 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 272942010739 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 272942010740 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942010741 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 272942010742 dimerization interface [polypeptide binding]; other site 272942010743 putative DNA binding site [nucleotide binding]; other site 272942010744 putative Zn2+ binding site [ion binding]; other site 272942010745 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942010746 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272942010747 active site 272942010748 potential frameshift: common BLAST hit: gi|254561081|ref|YP_003068176.1| putative regulator; putative molybdate and DNA-binding domains 272942010749 PBP superfamily domain; Region: PBP_like; pfam12727 272942010750 Helix-turn-helix domain; Region: HTH_17; pfam12728 272942010751 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942010752 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 272942010753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942010754 Walker A/P-loop; other site 272942010755 ATP binding site [chemical binding]; other site 272942010756 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 272942010757 putative active site [active] 272942010758 putative metal-binding site [ion binding]; other site 272942010759 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272942010760 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272942010761 Family description; Region: UvrD_C_2; pfam13538 272942010762 short chain dehydrogenase; Provisional; Region: PRK06940 272942010763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010764 active site 272942010765 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 272942010766 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272942010767 catalytic Zn binding site [ion binding]; other site 272942010768 NAD(P) binding site [chemical binding]; other site 272942010769 structural Zn binding site [ion binding]; other site 272942010770 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 272942010771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942010772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272942010773 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 272942010774 putative effector binding pocket; other site 272942010775 putative dimerization interface [polypeptide binding]; other site 272942010776 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 272942010777 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272942010778 catalytic tetrad [active] 272942010779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942010780 NADH(P)-binding; Region: NAD_binding_10; pfam13460 272942010781 NAD(P) binding site [chemical binding]; other site 272942010782 active site 272942010783 SnoaL-like domain; Region: SnoaL_4; pfam13577 272942010784 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272942010785 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 272942010786 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272942010787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010788 dimer interface [polypeptide binding]; other site 272942010789 conserved gate region; other site 272942010790 ABC-ATPase subunit interface; other site 272942010791 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 272942010792 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272942010793 Walker A/P-loop; other site 272942010794 ATP binding site [chemical binding]; other site 272942010795 Q-loop/lid; other site 272942010796 ABC transporter signature motif; other site 272942010797 Walker B; other site 272942010798 D-loop; other site 272942010799 H-loop/switch region; other site 272942010800 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942010801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 272942010802 non-specific DNA binding site [nucleotide binding]; other site 272942010803 salt bridge; other site 272942010804 sequence-specific DNA binding site [nucleotide binding]; other site 272942010805 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942010806 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 272942010807 ligand binding site [chemical binding]; other site 272942010808 flexible hinge region; other site 272942010809 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 272942010810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942010811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272942010812 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 272942010813 Walker A/P-loop; other site 272942010814 ATP binding site [chemical binding]; other site 272942010815 Q-loop/lid; other site 272942010816 ABC transporter signature motif; other site 272942010817 Walker B; other site 272942010818 D-loop; other site 272942010819 H-loop/switch region; other site 272942010820 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 272942010821 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272942010822 Walker A/P-loop; other site 272942010823 ATP binding site [chemical binding]; other site 272942010824 Q-loop/lid; other site 272942010825 ABC transporter signature motif; other site 272942010826 Walker B; other site 272942010827 D-loop; other site 272942010828 H-loop/switch region; other site 272942010829 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942010830 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942010831 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272942010832 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272942010833 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942010834 intersubunit interface [polypeptide binding]; other site 272942010835 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 272942010836 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272942010837 N-terminal plug; other site 272942010838 ligand-binding site [chemical binding]; other site 272942010839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942010840 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942010841 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942010842 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 272942010843 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272942010844 DNA binding residues [nucleotide binding] 272942010845 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272942010846 P-loop; other site 272942010847 Magnesium ion binding site [ion binding]; other site 272942010848 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272942010849 Magnesium ion binding site [ion binding]; other site 272942010850 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 272942010851 ParB-like nuclease domain; Region: ParB; smart00470 272942010852 replication initiation protein RepC; Provisional; Region: PRK13824 272942010853 Replication protein C N-terminal domain; Region: RP-C; pfam03428 272942010854 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 272942010855 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 272942010856 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 272942010857 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 272942010858 BioY family; Region: BioY; pfam02632 272942010859 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 272942010860 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272942010861 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942010862 Walker A/P-loop; other site 272942010863 ATP binding site [chemical binding]; other site 272942010864 Q-loop/lid; other site 272942010865 ABC transporter signature motif; other site 272942010866 Walker B; other site 272942010867 D-loop; other site 272942010868 H-loop/switch region; other site 272942010869 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 272942010870 Malonate transporter MadL subunit; Region: MadL; cl04273 272942010871 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 272942010872 carboxyltransferase (CT) interaction site; other site 272942010873 biotinylation site [posttranslational modification]; other site 272942010874 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 272942010875 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 272942010876 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 272942010877 YacP-like NYN domain; Region: NYN_YacP; cl01491 272942010878 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 272942010879 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 272942010880 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 272942010881 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 272942010882 Coenzyme A transferase; Region: CoA_trans; cl17247 272942010883 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272942010884 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 272942010885 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 272942010886 Na+-transporting malonate decarboxylase, carboxybiotin decarboxylase subunit; Region: malonate_biotin; TIGR03136 272942010887 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 272942010888 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 272942010889 hexamer interface [polypeptide binding]; other site 272942010890 RNA binding site [nucleotide binding]; other site 272942010891 Histidine-zinc binding site [chemical binding]; other site 272942010892 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 272942010893 putative active site [active] 272942010894 heme pocket [chemical binding]; other site 272942010895 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 272942010896 Chromate transporter; Region: Chromate_transp; cl17781 272942010897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 272942010898 S-adenosylmethionine binding site [chemical binding]; other site 272942010899 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 272942010900 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272942010901 MarR family; Region: MarR_2; pfam12802 272942010902 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272942010903 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942010904 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 272942010905 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272942010906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010907 dimer interface [polypeptide binding]; other site 272942010908 conserved gate region; other site 272942010909 putative PBP binding loops; other site 272942010910 ABC-ATPase subunit interface; other site 272942010911 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942010912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272942010913 dimer interface [polypeptide binding]; other site 272942010914 conserved gate region; other site 272942010915 putative PBP binding loops; other site 272942010916 ABC-ATPase subunit interface; other site 272942010917 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 272942010918 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 272942010919 Walker A/P-loop; other site 272942010920 ATP binding site [chemical binding]; other site 272942010921 Q-loop/lid; other site 272942010922 ABC transporter signature motif; other site 272942010923 Walker B; other site 272942010924 D-loop; other site 272942010925 H-loop/switch region; other site 272942010926 TOBE domain; Region: TOBE_2; pfam08402 272942010927 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272942010928 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272942010929 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272942010930 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272942010931 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272942010932 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272942010933 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272942010934 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272942010935 active sites [active] 272942010936 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 272942010937 tetramer interface [polypeptide binding]; other site